Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr14
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 244914714
ACGTcount: A:0.31, C:0.18, G:0.18, T:0.31
Warning! 4503000 characters in sequence are not A, C, G, or T
File 105 of 770
Found at i:30302463 original size:30 final size:29
Alignment explanation
Indices: 30302376--30302478 Score: 98
Period size: 30 Copynumber: 3.4 Consensus size: 29
30302366 GGTTGCTCTG
* *
30302376 GGTGAAATGAACTCGAACCGCCTATGTCCA
1 GGTGATATGAACTCGAA-CGCCAATGTCCA
* * * *
30302406 GGTGATATGAGCCCGAATCGCCCATGTCCG
1 GGTGATATGAACTCGAA-CGCCAATGTCCA
*
30302436 GGTGATATGAACTTGAACAGCCAATGTCCA
1 GGTGATATGAACTCGAAC-GCCAATGTCCA
* *
30302466 AGTTATATGAACT
1 GGTGATATGAACT
30302479 ACTCTGCGAC
Statistics
Matches: 59, Mismatches: 13, Indels: 2
0.80 0.18 0.03
Matches are distributed among these distances:
29 1 0.02
30 58 0.98
ACGTcount: A:0.29, C:0.23, G:0.24, T:0.23
Consensus pattern (29 bp):
GGTGATATGAACTCGAACGCCAATGTCCA
Found at i:30305433 original size:49 final size:49
Alignment explanation
Indices: 30305376--30305616 Score: 259
Period size: 49 Copynumber: 4.9 Consensus size: 49
30305366 GTAGCCAAAG
*
30305376 CTATCTGGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCAA
1 CTATCTGGTACACATAGTAGCCTGCACTTAGTACTACACATGCGACCAA
* * * ** *
30305425 TTATCTGGTACACGTAATAGCCTGCACTTAGTACTACACGCGTGACCTAA
1 CTATCTGGTACACATAGTAGCCTGCACTTAGTACTACACATGCGACC-AA
* * * * * * *
30305475 CCATCTGATACACGTAGTAGCCTGCACTTAGTACTATACACGTGATCGAA
1 CTATCTGGTACACATAGTAGCCTGCACTTAGTACTACACATGCGA-CCAA
* *
30305525 GTTAT-TGGGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCAA
1 -CTATCT-GGTACACATAGTAGCCTGCACTTAGTACTACACATGCGACCAA
** * *
30305575 CTATCCAGAACACATAGTAGCCAGCACTTAGTACTACACATG
1 CTATCTGGTACACATAGTAGCCTGCACTTAGTACTACACATG
30305617 TGGCCTCACA
Statistics
Matches: 158, Mismatches: 29, Indels: 10
0.80 0.15 0.05
Matches are distributed among these distances:
49 75 0.47
50 47 0.30
51 36 0.23
ACGTcount: A:0.30, C:0.27, G:0.18, T:0.25
Consensus pattern (49 bp):
CTATCTGGTACACATAGTAGCCTGCACTTAGTACTACACATGCGACCAA
Found at i:30305559 original size:101 final size:98
Alignment explanation
Indices: 30305388--30305614 Score: 269
Period size: 101 Copynumber: 2.3 Consensus size: 98
30305378 ATCTGGTACG
* *
30305388 CATAGTAGCCTGCACTTAGTACTACACATGCGACCAATTATCTGGTACACGTAATAGCCTGCACT
1 CATAGTAGCCTGCACTTAGTACTACACACGCGACCAATTATCTGGTACACATAATAGCCTGCACT
* * *
30305453 TAGTACTACACGCGTGACCTAACCAT-CTGATACA
66 TAGTACTACACACGCGACC-AACCATCCAGA-ACA
* * * * * *
30305487 CGTAGTAGCCTGCACTTAGTACTATACACGTGATCGAAGTTAT-TGGGTACGCATAGTAGCCTGC
1 CATAGTAGCCTGCACTTAGTACTACACACGCGA-CCAA-TTATCT-GGTACACATAATAGCCTGC
* *
30305551 ACTTAGTACTACACATGCGACCAACTATCCAGAACA
63 ACTTAGTACTACACACGCGACCAACCATCCAGAACA
*
30305587 CATAGTAGCCAGCACTTAGTACTACACA
1 CATAGTAGCCTGCACTTAGTACTACACA
30305615 TGTGGCCTCA
Statistics
Matches: 108, Mismatches: 16, Indels: 7
0.82 0.12 0.05
Matches are distributed among these distances:
99 29 0.27
100 37 0.34
101 42 0.39
ACGTcount: A:0.31, C:0.27, G:0.18, T:0.25
Consensus pattern (98 bp):
CATAGTAGCCTGCACTTAGTACTACACACGCGACCAATTATCTGGTACACATAATAGCCTGCACT
TAGTACTACACACGCGACCAACCATCCAGAACA
Found at i:30310538 original size:63 final size:64
Alignment explanation
Indices: 30310458--30310640 Score: 203
Period size: 66 Copynumber: 2.8 Consensus size: 64
30310448 AGACATTATG
* *
30310458 ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACG-GATAT
1 ATGTAGCTAGGTCGCATGGGTGGTACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATAA
* * * * *
30310521 ATGTAGCTAGGTCGCATGCGTGGTTCCAGGTGAAGGACACCATGTAGACAAGAGAGCTACGAGAT
1 ATGTAGCTAGGTCGCATGGGTGGTACTA--TG-TGTACACCATGTAGACAAGAGAGCTACGAGAT
30310586 AA
63 AA
* * *
30310588 AT-TGGCTAGGTCACATGGGTGGTACTGA-GTGTTCACCATGT-GTACAAGAGAGC
1 ATGTAGCTAGGTCGCATGGGTGGTACT-ATGTGTACACCATGTAG-ACAAGAGAGC
30310641 CGAACTATAT
Statistics
Matches: 99, Mismatches: 15, Indels: 12
0.79 0.12 0.10
Matches are distributed among these distances:
62 1 0.01
63 43 0.43
64 1 0.01
65 2 0.02
66 45 0.45
67 7 0.07
ACGTcount: A:0.29, C:0.17, G:0.31, T:0.23
Consensus pattern (64 bp):
ATGTAGCTAGGTCGCATGGGTGGTACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATAA
Found at i:30314238 original size:49 final size:49
Alignment explanation
Indices: 30314182--30314369 Score: 207
Period size: 49 Copynumber: 3.8 Consensus size: 49
30314172 TAGCCAAAGC
* * *
30314182 TATCTGGTACGCATAGTAGCCTGCACTTAGTATTATACATGCGACCAAT
1 TATCTGGTACACATAGTAGCCTGCACTTAGTACTACACATGCGACCAAT
* * * *
30314231 TATCTGGTACACTTAGTAGCCTGCACTTAGTACTACACACGTGATCGAAGT
1 TATCTGGTACACATAGTAGCCTGCACTTAGTACTACACATGCGA-CCAA-T
* * * *
30314282 TATC-GAGTACGCATAATAGCCTGCACTTAGTACTACACATACGACCAAC
1 TATCTG-GTACACATAGTAGCCTGCACTTAGTACTACACATGCGACCAAT
* ** *
30314331 TATCCGGTACATGTAGTAGCATGCACTTAGTACTACACA
1 TATCTGGTACACATAGTAGCCTGCACTTAGTACTACACA
30314370 CGTGAACTCA
Statistics
Matches: 115, Mismatches: 20, Indels: 8
0.80 0.14 0.06
Matches are distributed among these distances:
49 70 0.61
50 8 0.07
51 37 0.32
ACGTcount: A:0.30, C:0.24, G:0.18, T:0.28
Consensus pattern (49 bp):
TATCTGGTACACATAGTAGCCTGCACTTAGTACTACACATGCGACCAAT
Found at i:30314327 original size:100 final size:100
Alignment explanation
Indices: 30314188--30314374 Score: 295
Period size: 100 Copynumber: 1.9 Consensus size: 100
30314178 AAGCTATCTG
* * * * * * *
30314188 GTACGCATAGTAGCCTGCACTTAGTATTATACATGCGACCAATTATCTGGTACACT-TAGTAGCC
1 GTACGCATAATAGCCTGCACTTAGTACTACACATACGACCAACTATCCGGTACA-TGTAGTAGCA
30314252 TGCACTTAGTACTACACACGTGATCGAAGTTATCGA
65 TGCACTTAGTACTACACACGTGATCGAAGTTATCGA
30314288 GTACGCATAATAGCCTGCACTTAGTACTACACATACGACCAACTATCCGGTACATGTAGTAGCAT
1 GTACGCATAATAGCCTGCACTTAGTACTACACATACGACCAACTATCCGGTACATGTAGTAGCAT
30314353 GCACTTAGTACTACACACGTGA
66 GCACTTAGTACTACACACGTGA
30314375 ACTCACAATA
Statistics
Matches: 79, Mismatches: 7, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
99 1 0.01
100 78 0.99
ACGTcount: A:0.30, C:0.25, G:0.18, T:0.27
Consensus pattern (100 bp):
GTACGCATAATAGCCTGCACTTAGTACTACACATACGACCAACTATCCGGTACATGTAGTAGCAT
GCACTTAGTACTACACACGTGATCGAAGTTATCGA
Found at i:30316428 original size:13 final size:15
Alignment explanation
Indices: 30316397--30316427 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
30316387 TTATTACAAT
30316397 AAATATAAAATATAA
1 AAATATAAAATATAA
30316412 AAATATAAAATA-AA
1 AAATATAAAATATAA
30316426 AA
1 AA
30316428 TTTTAAAGAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 4 0.25
15 12 0.75
ACGTcount: A:0.77, C:0.00, G:0.00, T:0.23
Consensus pattern (15 bp):
AAATATAAAATATAA
Found at i:30316817 original size:20 final size:18
Alignment explanation
Indices: 30316792--30316836 Score: 54
Period size: 18 Copynumber: 2.4 Consensus size: 18
30316782 AAATCATAAT
30316792 TTAAAAAATTATATGTAAAA
1 TTAAAAAA--ATATGTAAAA
*
30316812 TTAAAAAAATATTTAAAA
1 TTAAAAAAATATGTAAAA
*
30316830 TTTAAAA
1 TTAAAAA
30316837 TATACATTTA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
18 15 0.65
20 8 0.35
ACGTcount: A:0.62, C:0.00, G:0.02, T:0.36
Consensus pattern (18 bp):
TTAAAAAAATATGTAAAA
Found at i:30316823 original size:18 final size:20
Alignment explanation
Indices: 30316789--30316850 Score: 65
Period size: 20 Copynumber: 3.1 Consensus size: 20
30316779 AAAAAATCAT
30316789 AATTTAAAAAATTATATGTAA
1 AATTTAAAAAA-TATATGTAA
*
30316810 AA-TTAAAAAA-ATATTTAA
1 AATTTAAAAAATATATGTAA
* * *
30316828 AATTTAAAATATACATTTAA
1 AATTTAAAAAATATATGTAA
30316848 AAT
1 AAT
30316851 ATTATAAAAC
Statistics
Matches: 36, Mismatches: 3, Indels: 5
0.82 0.07 0.11
Matches are distributed among these distances:
18 9 0.25
19 7 0.19
20 18 0.50
21 2 0.06
ACGTcount: A:0.60, C:0.02, G:0.02, T:0.37
Consensus pattern (20 bp):
AATTTAAAAAATATATGTAA
Found at i:30316967 original size:20 final size:20
Alignment explanation
Indices: 30316789--30316960 Score: 101
Period size: 21 Copynumber: 8.6 Consensus size: 20
30316779 AAAAAATCAT
* *
30316789 AATTTAAAAAATTATATGTAA
1 AATTTTAAAAA-TATATTTAA
*
30316810 AA--TTAAAAAAATATTTAA
1 AATTTTAAAAATATATTTAA
*
30316828 AA-TTTAAAATATACATTTAA
1 AATTTTAAAA-ATATATTTAA
* *
30316848 AATATTATAAAACTA-A-TAATA
1 AAT-TT-TAAAAATATATTTA-A
* * *
30316869 AATTTGAAAGGCATATCTTTAA
1 AATTTTAAA--AATATATTTAA
30316891 AATATTT--AAATAT-TTT-A
1 AAT-TTTAAAAATATATTTAA
*
30316908 TATTATTAAAAATATATTTAA
1 AATT-TTAAAAATATATTTAA
30316929 AATTTTAAAAATAATATTTAA
1 AATTTTAAAAAT-ATATTTAA
30316950 AATTTTAAAAA
1 AATTTTAAAAA
30316961 ATAATTTCAT
Statistics
Matches: 118, Mismatches: 16, Indels: 34
0.70 0.10 0.20
Matches are distributed among these distances:
16 1 0.01
17 5 0.04
18 12 0.10
19 25 0.21
20 25 0.21
21 33 0.28
22 8 0.07
23 9 0.08
ACGTcount: A:0.55, C:0.02, G:0.02, T:0.40
Consensus pattern (20 bp):
AATTTTAAAAATATATTTAA
Found at i:30317018 original size:2 final size:2
Alignment explanation
Indices: 30316969--30316998 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
30316959 AAATAATTTC
30316969 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
30316999 TTAAAATTTA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:30317161 original size:29 final size:27
Alignment explanation
Indices: 30317110--30317163 Score: 72
Period size: 27 Copynumber: 1.9 Consensus size: 27
30317100 AAAAAAACTT
* *
30317110 AAAAAAGTAAATAAAAAAGAAAGAAAG
1 AAAAAAGTAAAAAAAAAACAAAGAAAG
30317137 AAAAAAGTAATAAAACAAAACAAAGAA
1 AAAAAAGTAA-AAAA-AAAACAAAGAA
30317164 TTTGACCGAA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
27 10 0.43
28 3 0.13
29 10 0.43
ACGTcount: A:0.78, C:0.04, G:0.11, T:0.07
Consensus pattern (27 bp):
AAAAAAGTAAAAAAAAAACAAAGAAAG
Found at i:30319764 original size:27 final size:27
Alignment explanation
Indices: 30319726--30319780 Score: 110
Period size: 27 Copynumber: 2.0 Consensus size: 27
30319716 GTTTACCCAT
30319726 TAAACTTGTAATTTTTTTGACAAATCA
1 TAAACTTGTAATTTTTTTGACAAATCA
30319753 TAAACTTGTAATTTTTTTGACAAATCA
1 TAAACTTGTAATTTTTTTGACAAATCA
30319780 T
1 T
30319781 TCTAAAATAG
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.36, C:0.11, G:0.07, T:0.45
Consensus pattern (27 bp):
TAAACTTGTAATTTTTTTGACAAATCA
Found at i:30319924 original size:19 final size:18
Alignment explanation
Indices: 30319880--30319926 Score: 51
Period size: 19 Copynumber: 2.5 Consensus size: 18
30319870 AGTTAAGAAA
*
30319880 TTTATAAAAATTCTAATT
1 TTTATAATAATTCTAATT
30319898 TTTAATAATAATT-TAATAT
1 TTT-ATAATAATTCTAAT-T
30319917 TATTATAATA
1 T-TTATAATA
30319927 CTTTCTATAT
Statistics
Matches: 25, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
18 7 0.28
19 16 0.64
20 2 0.08
ACGTcount: A:0.47, C:0.02, G:0.00, T:0.51
Consensus pattern (18 bp):
TTTATAATAATTCTAATT
Found at i:30324697 original size:41 final size:41
Alignment explanation
Indices: 30324640--30324722 Score: 166
Period size: 41 Copynumber: 2.0 Consensus size: 41
30324630 ACTACACGTG
30324640 TTTCCATGTACATCTATTTAGATTAGCATTAACTATGAAGC
1 TTTCCATGTACATCTATTTAGATTAGCATTAACTATGAAGC
30324681 TTTCCATGTACATCTATTTAGATTAGCATTAACTATGAAGC
1 TTTCCATGTACATCTATTTAGATTAGCATTAACTATGAAGC
30324722 T
1 T
30324723 AAGTGTTGGT
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
41 42 1.00
ACGTcount: A:0.31, C:0.17, G:0.12, T:0.40
Consensus pattern (41 bp):
TTTCCATGTACATCTATTTAGATTAGCATTAACTATGAAGC
Found at i:30329149 original size:93 final size:93
Alignment explanation
Indices: 30329040--30329232 Score: 377
Period size: 93 Copynumber: 2.1 Consensus size: 93
30329030 ACATATTTTC
30329040 TATTTCTATCTTTAAAATCAATCAATTTCTTTAAATAAAATTGAGCCTATTTTCCATTATCTTCA
1 TATTT-TATCTTTAAAATCAATCAATTTCTTTAAATAAAATTGAGCCTATTTTCCATTATCTTCA
30329105 AAAATCGACTAATTTACTCTATCAAAAAT
65 AAAATCGACTAATTTACTCTATCAAAAAT
30329134 TATTTTATCTTTAAAATCAATCAATTTCTTTAAATAAAATTGAGCCTATTTTCCATTATCTTCAA
1 TATTTTATCTTTAAAATCAATCAATTTCTTTAAATAAAATTGAGCCTATTTTCCATTATCTTCAA
30329199 AAATCGACTAATTTACTCTATCAAAAAT
66 AAATCGACTAATTTACTCTATCAAAAAT
30329227 TATTTT
1 TATTTT
30329233 GGGTCTCCTT
Statistics
Matches: 99, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
93 94 0.95
94 5 0.05
ACGTcount: A:0.38, C:0.16, G:0.03, T:0.43
Consensus pattern (93 bp):
TATTTTATCTTTAAAATCAATCAATTTCTTTAAATAAAATTGAGCCTATTTTCCATTATCTTCAA
AAATCGACTAATTTACTCTATCAAAAAT
Found at i:30330102 original size:107 final size:108
Alignment explanation
Indices: 30329932--30330147 Score: 398
Period size: 107 Copynumber: 2.0 Consensus size: 108
30329922 AAAAAACACG
*
30329932 TCAAAAATTTTATCAGAGTAATTAACAAAAATTTTAATACAATTTTGTTAGAAATTTTATTATTT
1 TCAAAAATTTTATCAGAGTAATTAACAAAAATTTTAATACAAGTTTGTTAGAAATTTTATTATTT
*
30329997 AAAACTTATTCCAACTTAACATATCATTGTTTTGTTAAACTAA
66 AAAACTTATTCCAACTTAACATATCATTATTTTGTTAAACTAA
30330040 TCAAAAATTTTAT-AGAGTAATTAACAAAAATTTTAATACAAGTTTGTTAGAAATTTTATTATTT
1 TCAAAAATTTTATCAGAGTAATTAACAAAAATTTTAATACAAGTTTGTTAGAAATTTTATTATTT
*
30330104 AAAACTTATTCTAACTTAACATATCATTATTTTGTTAAACTAA
66 AAAACTTATTCCAACTTAACATATCATTATTTTGTTAAACTAA
30330147 T
1 T
30330148 TTTTTATTTA
Statistics
Matches: 105, Mismatches: 3, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
107 92 0.88
108 13 0.12
ACGTcount: A:0.42, C:0.09, G:0.06, T:0.43
Consensus pattern (108 bp):
TCAAAAATTTTATCAGAGTAATTAACAAAAATTTTAATACAAGTTTGTTAGAAATTTTATTATTT
AAAACTTATTCCAACTTAACATATCATTATTTTGTTAAACTAA
Found at i:30331457 original size:7 final size:7
Alignment explanation
Indices: 30331445--30331491 Score: 87
Period size: 7 Copynumber: 6.9 Consensus size: 7
30331435 TTTCAGTATC
30331445 CTCTCAA
1 CTCTCAA
30331452 CTCTCAA
1 CTCTCAA
30331459 CTCTCAA
1 CTCTCAA
30331466 CTCTCAA
1 CTCTCAA
30331473 CTCTC-A
1 CTCTCAA
30331479 CTCTCAA
1 CTCTCAA
30331486 CTCTCA
1 CTCTCA
30331492 GCCAGGGAGC
Statistics
Matches: 39, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
6 6 0.15
7 33 0.85
ACGTcount: A:0.26, C:0.45, G:0.00, T:0.30
Consensus pattern (7 bp):
CTCTCAA
Found at i:30333065 original size:14 final size:16
Alignment explanation
Indices: 30333032--30333068 Score: 51
Period size: 14 Copynumber: 2.4 Consensus size: 16
30333022 GCCGCCAGCC
30333032 ACCACCAATCGCCGTCA
1 ACCACCAATCGCCG-CA
30333049 ACCACC-ATCGCCG-A
1 ACCACCAATCGCCGCA
30333063 ACCACC
1 ACCACC
30333069 GTCGATCACT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
14 7 0.35
16 7 0.35
17 6 0.30
ACGTcount: A:0.30, C:0.51, G:0.11, T:0.08
Consensus pattern (16 bp):
ACCACCAATCGCCGCA
Found at i:30337340 original size:47 final size:47
Alignment explanation
Indices: 30337283--30337412 Score: 154
Period size: 47 Copynumber: 2.8 Consensus size: 47
30337273 GTGCGAATAA
* ** *
30337283 TACCTTGATTTGGCTACGGACCATGGTATAGGTATTTTGAGAGGAGC
1 TACCTTGATTTGGCTACGGACCATGGTATAGGTACTCCGAGAGAAGC
* * * * *
30337330 TACTTTGATTTGGCTATGGGCCATGGTATAGGTACTCCGAGATAAGT
1 TACCTTGATTTGGCTACGGACCATGGTATAGGTACTCCGAGAGAAGC
*
30337377 TACCTTGATTTAGCTAC-GAGCCATGGTATAGGTACT
1 TACCTTGATTTGGCTACGGA-CCATGGTATAGGTACT
30337413 TATTGATTGT
Statistics
Matches: 69, Mismatches: 13, Indels: 2
0.82 0.15 0.02
Matches are distributed among these distances:
46 1 0.01
47 68 0.99
ACGTcount: A:0.24, C:0.16, G:0.27, T:0.33
Consensus pattern (47 bp):
TACCTTGATTTGGCTACGGACCATGGTATAGGTACTCCGAGAGAAGC
Found at i:30339921 original size:24 final size:24
Alignment explanation
Indices: 30339875--30339923 Score: 62
Period size: 24 Copynumber: 2.0 Consensus size: 24
30339865 CTCCTCTTTA
*
30339875 TCATATCCATCTTCACCTTGACCC
1 TCATATCCATCTTCACCTCGACCC
* * *
30339899 TCATATTCATCTTTATCTCGACCC
1 TCATATCCATCTTCACCTCGACCC
30339923 T
1 T
30339924 TGTCTTCATC
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.20, C:0.37, G:0.04, T:0.39
Consensus pattern (24 bp):
TCATATCCATCTTCACCTCGACCC
Found at i:30339931 original size:24 final size:24
Alignment explanation
Indices: 30339904--30339954 Score: 68
Period size: 24 Copynumber: 2.1 Consensus size: 24
30339894 GACCCTCATA
* *
30339904 TTCATCTTTAT-CTCGACCCTTGTC
1 TTCATCTTCATCCTC-ACCCCTGTC
30339928 TTCATCTTCATCCTCACCCCTGTC
1 TTCATCTTCATCCTCACCCCTGTC
30339952 TTC
1 TTC
30339955 GTCTATGTAC
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
24 21 0.88
25 3 0.12
ACGTcount: A:0.12, C:0.39, G:0.06, T:0.43
Consensus pattern (24 bp):
TTCATCTTCATCCTCACCCCTGTC
Found at i:30342199 original size:139 final size:140
Alignment explanation
Indices: 30341933--30342224 Score: 473
Period size: 139 Copynumber: 2.1 Consensus size: 140
30341923 AATAGAGAAC
*
30341933 ATAG-ATATAATTAATATATGAATTTGATTCATAAAAAATATTAATTGTATATATTCTACTGAAT
1 ATAGAATATAATTAATATATGAATTTGATTCATAAAAAATATTAATTGTATATATTCTACCGAAT
* * *
30341997 TTATTAATATATAAACAGTTATACTAATTAATTTTGGTCAAAATATAAAAGATATGGAGATTAAT
66 TTATTAATATATAAACAGTTATACTAATTAATTTCGGTCAAAATATAAAAGACATGGAAATTAAT
30342062 ATTCTTTTGG
131 ATTCTTTTGG
* *
30342072 ATAGAATATAATTAATATATGAATTTGATTCATACAAAATATTAATTGTATATATTTTACCGAAT
1 ATAGAATATAATTAATATATGAATTTGATTCATAAAAAATATTAATTGTATATATTCTACCGAA-
* *
30342137 TTTATT-A-ATATAAATAGTTATATTAATTAATTTCGGTCAAAATATAAAAGACATGGAAATTAA
65 TTTATTAATATATAAACAGTTATACTAATTAATTTCGGTCAAAATATAAAAGACATGGAAATTAA
30342200 TATTCTTTTGG
130 TATTCTTTTGG
*
30342211 AAAGAATATAATTA
1 ATAGAATATAATTA
30342225 CTTTTTCTAA
Statistics
Matches: 142, Mismatches: 9, Indels: 4
0.92 0.06 0.03
Matches are distributed among these distances:
139 79 0.56
140 57 0.40
141 6 0.04
ACGTcount: A:0.44, C:0.05, G:0.10, T:0.41
Consensus pattern (140 bp):
ATAGAATATAATTAATATATGAATTTGATTCATAAAAAATATTAATTGTATATATTCTACCGAAT
TTATTAATATATAAACAGTTATACTAATTAATTTCGGTCAAAATATAAAAGACATGGAAATTAAT
ATTCTTTTGG
Found at i:30342292 original size:75 final size:75
Alignment explanation
Indices: 30342199--30342415 Score: 384
Period size: 75 Copynumber: 2.9 Consensus size: 75
30342189 ATGGAAATTA
**
30342199 ATATTCTTTTGGAAAGAATATAATT-ACTTTTTCTAACTTTTC-ATTTGTCTTCTCTATTAATAA
1 ATATTCTTTTGGAAAGAATATAATTCA-TTTTTCTAAC-TTTCAATTTACCTTCTCTATTAATAA
30342262 GGGAATAATCCT
64 GGGAATAATCCT
30342274 ATATTCTTTTGGAAAGAATATAATTCATTTTTCTAACTTTCAATTTACCTTCTCTATTAATAAGG
1 ATATTCTTTTGGAAAGAATATAATTCATTTTTCTAACTTTCAATTTACCTTCTCTATTAATAAGG
30342339 GAATAATCCT
66 GAATAATCCT
30342349 ATATTCTTTTGGAAAGAATATAATTCATTTTTCTAACTTTCAATTTACCTTCTCTATTAATAAGG
1 ATATTCTTTTGGAAAGAATATAATTCATTTTTCTAACTTTCAATTTACCTTCTCTATTAATAAGG
30342414 GA
66 GA
30342416 CAAATCTTGG
Statistics
Matches: 138, Mismatches: 2, Indels: 4
0.96 0.01 0.03
Matches are distributed among these distances:
74 4 0.03
75 133 0.96
76 1 0.01
ACGTcount: A:0.32, C:0.14, G:0.09, T:0.45
Consensus pattern (75 bp):
ATATTCTTTTGGAAAGAATATAATTCATTTTTCTAACTTTCAATTTACCTTCTCTATTAATAAGG
GAATAATCCT
Found at i:30344724 original size:2 final size:2
Alignment explanation
Indices: 30344669--30344709 Score: 82
Period size: 2 Copynumber: 20.5 Consensus size: 2
30344659 TAACATAATC
30344669 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
30344710 ATCAAGTCAA
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 39 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:30355661 original size:27 final size:27
Alignment explanation
Indices: 30355630--30355732 Score: 80
Period size: 27 Copynumber: 3.5 Consensus size: 27
30355620 GTTGGATTTA
*
30355630 AGCACTATGTGTGTGAATTAATTTCTG
1 AGCACTAAGTGTGTGAATTAATTTCTG
* * *
30355657 AGCACTAAGTGTGCGAATGTGTACGAGTTGGATTTA
1 AGCACTAAGTGTGTGAA--T-TA--A-TT---TCTG
*
30355693 AGCACTATGTGTGTGAATTAATTTCTG
1 AGCACTAAGTGTGTGAATTAATTTCTG
30355720 AGCACTAAGTGTG
1 AGCACTAAGTGTG
30355733 CGAAGTCAGT
Statistics
Matches: 58, Mismatches: 9, Indels: 18
0.68 0.11 0.21
Matches are distributed among these distances:
27 29 0.50
29 1 0.02
30 4 0.07
31 1 0.02
32 1 0.02
33 4 0.07
34 1 0.02
36 17 0.29
ACGTcount: A:0.27, C:0.12, G:0.26, T:0.35
Consensus pattern (27 bp):
AGCACTAAGTGTGTGAATTAATTTCTG
Found at i:30355716 original size:63 final size:63
Alignment explanation
Indices: 30355612--30355736 Score: 241
Period size: 63 Copynumber: 2.0 Consensus size: 63
30355602 TGACCATTAA
*
30355612 GTGTGCGAGTTGGATTTAAGCACTATGTGTGTGAATTAATTTCTGAGCACTAAGTGTGCGAAT
1 GTGTACGAGTTGGATTTAAGCACTATGTGTGTGAATTAATTTCTGAGCACTAAGTGTGCGAAT
30355675 GTGTACGAGTTGGATTTAAGCACTATGTGTGTGAATTAATTTCTGAGCACTAAGTGTGCGAA
1 GTGTACGAGTTGGATTTAAGCACTATGTGTGTGAATTAATTTCTGAGCACTAAGTGTGCGAA
30355737 GTCAGTTATT
Statistics
Matches: 61, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
63 61 1.00
ACGTcount: A:0.26, C:0.11, G:0.28, T:0.34
Consensus pattern (63 bp):
GTGTACGAGTTGGATTTAAGCACTATGTGTGTGAATTAATTTCTGAGCACTAAGTGTGCGAAT
Found at i:30356333 original size:38 final size:38
Alignment explanation
Indices: 30356276--30356389 Score: 165
Period size: 38 Copynumber: 3.0 Consensus size: 38
30356266 TGTAAGATTT
30356276 CAGGTTATAATCCCGCAGGCTTCGTGCTGGTCTTATATC
1 CAGGTTA-AATCCCGCAGGCTTCGTGCTGGTCTTATATC
*
30356315 CAGGTTAAATCTCGCAGGCTTCGTGCTGGTCTTATATC
1 CAGGTTAAATCCCGCAGGCTTCGTGCTGGTCTTATATC
** * * *
30356353 TGGGTTAAATCCCGCAGGCCTAGTGCTGGTATTATAT
1 CAGGTTAAATCCCGCAGGCTTCGTGCTGGTCTTATAT
30356390 TCGGGCCTTT
Statistics
Matches: 68, Mismatches: 7, Indels: 1
0.89 0.09 0.01
Matches are distributed among these distances:
38 61 0.90
39 7 0.10
ACGTcount: A:0.19, C:0.23, G:0.25, T:0.33
Consensus pattern (38 bp):
CAGGTTAAATCCCGCAGGCTTCGTGCTGGTCTTATATC
Found at i:30359206 original size:27 final size:27
Alignment explanation
Indices: 30359143--30359198 Score: 112
Period size: 27 Copynumber: 2.1 Consensus size: 27
30359133 GATAAGATTC
30359143 ATATAGATAGAAAATAATCTATCATTG
1 ATATAGATAGAAAATAATCTATCATTG
30359170 ATATAGATAGAAAATAATCTATCATTG
1 ATATAGATAGAAAATAATCTATCATTG
30359197 AT
1 AT
30359199 TTCAATAGCA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 29 1.00
ACGTcount: A:0.48, C:0.07, G:0.11, T:0.34
Consensus pattern (27 bp):
ATATAGATAGAAAATAATCTATCATTG
Found at i:30361315 original size:25 final size:25
Alignment explanation
Indices: 30361278--30361372 Score: 129
Period size: 25 Copynumber: 3.8 Consensus size: 25
30361268 CACCAAACAC
* *
30361278 GACATA-TAACTGGAAAGCTTTTGT
1 GACATATTATCTGGAAAGCCTTTGT
**
30361302 GGTATATTATCTGGAAAGCCTTTGT
1 GACATATTATCTGGAAAGCCTTTGT
* *
30361327 GACATCTTATTTGGAAAGCCTTTGT
1 GACATATTATCTGGAAAGCCTTTGT
30361352 GACATATTATCTGGAAAGCCT
1 GACATATTATCTGGAAAGCCT
30361373 GTATGGTGAT
Statistics
Matches: 60, Mismatches: 10, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
24 4 0.07
25 56 0.93
ACGTcount: A:0.28, C:0.15, G:0.21, T:0.36
Consensus pattern (25 bp):
GACATATTATCTGGAAAGCCTTTGT
Found at i:30363014 original size:16 final size:15
Alignment explanation
Indices: 30362989--30363018 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
30362979 CTAGATCGGC
30362989 AAAAGCCGAAAAGCT
1 AAAAGCCGAAAAGCT
30363004 AAAATGCCGAAAAGC
1 AAAA-GCCGAAAAGC
30363019 CGATATTTTG
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 4 0.29
16 10 0.71
ACGTcount: A:0.53, C:0.20, G:0.20, T:0.07
Consensus pattern (15 bp):
AAAAGCCGAAAAGCT
Found at i:30364656 original size:65 final size:68
Alignment explanation
Indices: 30364587--30364771 Score: 252
Period size: 71 Copynumber: 2.7 Consensus size: 68
30364577 TAGTACCACT
*
30364587 CATGCGACCTAGC-CGATTTGTC-T-CGTAGCTCTCTT-TCTACATGATGTCCTTCACTTGGAAT
1 CATGCGACCTAGCAC-ATTTATCTTACGTAGCTCTCTTGTCTACATGATGTCCTTCACTTGGAAT
30364648 CACG
65 CACG
* *
30364652 CATGCGACCTAGCTACATTTATCTTTCACGTATCTCTCTTGTCTACATGGTGTCCTTCACTTGGA
1 CATGCGACCTAGC-ACATTTATC-TT-ACGTAGCTCTCTTGTCTACATGATGTCCTTCACTTGGA
30364717 ATCACG
63 ATCACG
30364723 CATGCGACCTAGCTACATTTATCTTTCACGTAGCTCTCTTGTCTACATG
1 CATGCGACCTAGC-ACATTTATC-TT-ACGTAGCTCTCTTGTCTACATG
30364772 GGATACATCT
Statistics
Matches: 109, Mismatches: 4, Indels: 8
0.90 0.03 0.07
Matches are distributed among these distances:
65 13 0.12
66 6 0.06
67 1 0.01
68 1 0.01
70 11 0.10
71 77 0.71
ACGTcount: A:0.19, C:0.29, G:0.16, T:0.36
Consensus pattern (68 bp):
CATGCGACCTAGCACATTTATCTTACGTAGCTCTCTTGTCTACATGATGTCCTTCACTTGGAATC
ACG
Found at i:30364707 original size:71 final size:71
Alignment explanation
Indices: 30364610--30364772 Score: 301
Period size: 71 Copynumber: 2.3 Consensus size: 71
30364600 CGATTTGTCT
*
30364610 CGTAGCTCTCTT-TCTACATGATGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
30364674 CTTTCA
66 CTTTCA
*
30364680 CGTATCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
30364745 CTTTCA
66 CTTTCA
30364751 CGTAGCTCTCTTGTCTACATGG
1 CGTAGCTCTCTTGTCTACATGG
30364773 GATACATCTC
Statistics
Matches: 89, Mismatches: 3, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
70 11 0.12
71 78 0.88
ACGTcount: A:0.20, C:0.28, G:0.16, T:0.36
Consensus pattern (71 bp):
CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
CTTTCA
Found at i:30364810 original size:71 final size:70
Alignment explanation
Indices: 30364610--30364806 Score: 231
Period size: 71 Copynumber: 2.8 Consensus size: 70
30364600 CGATTTGTCT
* * * * *
30364610 CGTAGCTCTCTT-TCTACATGATGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACACATGCGACCTAGCTACATTTAT
30364674 CTTTCA
65 CTTTCA
* * * * *
30364680 CGTATCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACACATGCGACCTAGCTACATTTAT
30364745 CTTTCA
65 CTTTCA
* *
30364751 CGTAGCTCTCTTGTCTACATGG-GATACAT-C-TCGTATCACACATGTGACCTAGCTAC
1 CGTAGCTCTCTTGTCTACATGGTG-TACATACTTCGAATCACACATGCGACCTAGCTAC
30364807 TACAGGGTGT
Statistics
Matches: 116, Mismatches: 9, Indels: 6
0.89 0.07 0.05
Matches are distributed among these distances:
68 22 0.19
69 1 0.01
70 12 0.10
71 81 0.70
ACGTcount: A:0.21, C:0.28, G:0.16, T:0.35
Consensus pattern (70 bp):
CGTAGCTCTCTTGTCTACATGGTGTACATACTTCGAATCACACATGCGACCTAGCTACATTTATC
TTTCA
Found at i:30366253 original size:27 final size:26
Alignment explanation
Indices: 30366211--30366316 Score: 106
Period size: 27 Copynumber: 3.9 Consensus size: 26
30366201 GAGGAAGCGT
30366211 CCTGGTGGCTAC-GCCACAATTATCTGA
1 CCTGGTGGCT-CTGCCAC-ATTATCTGA
*
30366238 CCTGGTGGCTCTGCCACATATATCTGT
1 CCTGGTGGCTCTGCCACAT-TATCTGA
* *
30366265 TCTGGTGGTTCTGCCACGATTATCTGTA
1 CCTGGTGGCTCTGCCAC-ATTATCTG-A
* * *
30366293 TCTGGTGACTCTGTCACATTATCT
1 CCTGGTGGCTCTGCCACATTATCT
30366317 ATTCTGGCAG
Statistics
Matches: 68, Mismatches: 7, Indels: 8
0.82 0.08 0.10
Matches are distributed among these distances:
26 3 0.04
27 49 0.72
28 16 0.24
ACGTcount: A:0.17, C:0.26, G:0.22, T:0.35
Consensus pattern (26 bp):
CCTGGTGGCTCTGCCACATTATCTGA
Found at i:30367305 original size:16 final size:16
Alignment explanation
Indices: 30367284--30367315 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
30367274 AATGGGTTTA
*
30367284 CAAAAACAAAGATTTT
1 CAAAAACAAAAATTTT
30367300 CAAAAACAAAAATTTT
1 CAAAAACAAAAATTTT
30367316 ATAAAGTTTT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.59, C:0.12, G:0.03, T:0.25
Consensus pattern (16 bp):
CAAAAACAAAAATTTT
Found at i:30374126 original size:28 final size:28
Alignment explanation
Indices: 30374072--30374145 Score: 91
Period size: 27 Copynumber: 2.8 Consensus size: 28
30374062 TGGTGGCTAC
* *
30374072 GCCACAATTATCTG-ATCTGATGGCTCT
1 GCCACAATTATCTGTATCTGGTGACTCT
30374099 GCCACAATTATCTGTATCTGGTGACTCT
1 GCCACAATTATCTGTATCTGGTGACTCT
* *
30374127 GTCAC-ATTAACTGT-TCTGG
1 GCCACAATTATCTGTATCTGG
30374146 CAACCATGCT
Statistics
Matches: 42, Mismatches: 4, Indels: 3
0.86 0.08 0.06
Matches are distributed among these distances:
26 5 0.12
27 22 0.52
28 15 0.36
ACGTcount: A:0.22, C:0.24, G:0.19, T:0.35
Consensus pattern (28 bp):
GCCACAATTATCTGTATCTGGTGACTCT
Found at i:30375322 original size:22 final size:21
Alignment explanation
Indices: 30375296--30375344 Score: 53
Period size: 22 Copynumber: 2.2 Consensus size: 21
30375286 ATTGTACTTA
*
30375296 AATTATTGACATATTAAATTTT
1 AATTATT-ACATAATAAATTTT
**
30375318 AATTAATTTTATAATAAATTTT
1 AATT-ATTACATAATAAATTTT
30375340 AATTA
1 AATTA
30375345 CTTTTGATTT
Statistics
Matches: 23, Mismatches: 3, Indels: 3
0.79 0.10 0.10
Matches are distributed among these distances:
21 1 0.04
22 19 0.83
23 3 0.13
ACGTcount: A:0.45, C:0.02, G:0.02, T:0.51
Consensus pattern (21 bp):
AATTATTACATAATAAATTTT
Found at i:30380191 original size:43 final size:42
Alignment explanation
Indices: 30380143--30380226 Score: 114
Period size: 43 Copynumber: 2.0 Consensus size: 42
30380133 GTTGCCGAGA
* * *
30380143 TGTGATTACATGTGAGACCATGTCTGGGACATTGGCATTGTAC
1 TGTGATAACATGTAAGACCATATCTGGGACA-TGGCATTGTAC
* *
30380186 TGTGATAACATGTAAGACTATATCTGGGATATGGCATTGTA
1 TGTGATAACATGTAAGACCATATCTGGGACATGGCATTGTA
30380227 TGAGATATAT
Statistics
Matches: 36, Mismatches: 5, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
42 10 0.28
43 26 0.72
ACGTcount: A:0.27, C:0.13, G:0.26, T:0.33
Consensus pattern (42 bp):
TGTGATAACATGTAAGACCATATCTGGGACATGGCATTGTAC
Found at i:30386852 original size:24 final size:24
Alignment explanation
Indices: 30386820--30386906 Score: 165
Period size: 24 Copynumber: 3.6 Consensus size: 24
30386810 AATCTCAAAT
30386820 GCACTATGTGTGCGATTTACTATG
1 GCACTATGTGTGCGATTTACTATG
*
30386844 GCACTATGTGTGCGATTTACTATA
1 GCACTATGTGTGCGATTTACTATG
30386868 GCACTATGTGTGCGATTTACTATG
1 GCACTATGTGTGCGATTTACTATG
30386892 GCACTATGTGTGCGA
1 GCACTATGTGTGCGA
30386907 ACATAATAAG
Statistics
Matches: 61, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
24 61 1.00
ACGTcount: A:0.22, C:0.17, G:0.25, T:0.36
Consensus pattern (24 bp):
GCACTATGTGTGCGATTTACTATG
Found at i:30386872 original size:48 final size:48
Alignment explanation
Indices: 30386820--30386928 Score: 175
Period size: 48 Copynumber: 2.3 Consensus size: 48
30386810 AATCTCAAAT
** *
30386820 GCACTATGTGTGCGATTTACTATGGCACTATGTGTGCG-ATTTACTATA
1 GCACTATGTGTGCGATTTACTATGGCACTATGTGTGCGAACATAATA-A
30386868 GCACTATGTGTGCGATTTACTATGGCACTATGTGTGCGAACATAATAA
1 GCACTATGTGTGCGATTTACTATGGCACTATGTGTGCGAACATAATAA
30386916 GCACTATGTGTGC
1 GCACTATGTGTGC
30386929 AACGTTTGGT
Statistics
Matches: 57, Mismatches: 3, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
48 52 0.91
49 5 0.09
ACGTcount: A:0.25, C:0.17, G:0.24, T:0.34
Consensus pattern (48 bp):
GCACTATGTGTGCGATTTACTATGGCACTATGTGTGCGAACATAATAA
Found at i:30386919 original size:24 final size:24
Alignment explanation
Indices: 30386820--30386928 Score: 157
Period size: 24 Copynumber: 4.5 Consensus size: 24
30386810 AATCTCAAAT
*
30386820 GCACTATGTGTGCGATTTACTATG
1 GCACTATGTGTGCGATTTACTATA
30386844 GCACTATGTGTGCGATTTACTATA
1 GCACTATGTGTGCGATTTACTATA
*
30386868 GCACTATGTGTGCGATTTACTATG
1 GCACTATGTGTGCGATTTACTATA
** *
30386892 GCACTATGTGTGCGAACATAATA-A
1 GCACTATGTGTGCG-ATTTACTATA
30386916 GCACTATGTGTGC
1 GCACTATGTGTGC
30386929 AACGTTTGGT
Statistics
Matches: 78, Mismatches: 6, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
24 73 0.94
25 5 0.06
ACGTcount: A:0.25, C:0.17, G:0.24, T:0.34
Consensus pattern (24 bp):
GCACTATGTGTGCGATTTACTATA
Found at i:30394722 original size:24 final size:24
Alignment explanation
Indices: 30394690--30394776 Score: 165
Period size: 24 Copynumber: 3.6 Consensus size: 24
30394680 AATCTCAAAT
30394690 GCACTATGTGTGCGATTTACTATG
1 GCACTATGTGTGCGATTTACTATG
*
30394714 GCACTATGTGTGCGATTTACTATA
1 GCACTATGTGTGCGATTTACTATG
30394738 GCACTATGTGTGCGATTTACTATG
1 GCACTATGTGTGCGATTTACTATG
30394762 GCACTATGTGTGCGA
1 GCACTATGTGTGCGA
30394777 ACATAATAAG
Statistics
Matches: 61, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
24 61 1.00
ACGTcount: A:0.22, C:0.17, G:0.25, T:0.36
Consensus pattern (24 bp):
GCACTATGTGTGCGATTTACTATG
Found at i:30394742 original size:48 final size:48
Alignment explanation
Indices: 30394690--30394798 Score: 175
Period size: 48 Copynumber: 2.3 Consensus size: 48
30394680 AATCTCAAAT
** *
30394690 GCACTATGTGTGCGATTTACTATGGCACTATGTGTGCG-ATTTACTATA
1 GCACTATGTGTGCGATTTACTATGGCACTATGTGTGCGAACATAATA-A
30394738 GCACTATGTGTGCGATTTACTATGGCACTATGTGTGCGAACATAATAA
1 GCACTATGTGTGCGATTTACTATGGCACTATGTGTGCGAACATAATAA
30394786 GCACTATGTGTGC
1 GCACTATGTGTGC
30394799 AACGTTTGGT
Statistics
Matches: 57, Mismatches: 3, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
48 52 0.91
49 5 0.09
ACGTcount: A:0.25, C:0.17, G:0.24, T:0.34
Consensus pattern (48 bp):
GCACTATGTGTGCGATTTACTATGGCACTATGTGTGCGAACATAATAA
Found at i:30394789 original size:24 final size:24
Alignment explanation
Indices: 30394690--30394798 Score: 157
Period size: 24 Copynumber: 4.5 Consensus size: 24
30394680 AATCTCAAAT
*
30394690 GCACTATGTGTGCGATTTACTATG
1 GCACTATGTGTGCGATTTACTATA
30394714 GCACTATGTGTGCGATTTACTATA
1 GCACTATGTGTGCGATTTACTATA
*
30394738 GCACTATGTGTGCGATTTACTATG
1 GCACTATGTGTGCGATTTACTATA
** *
30394762 GCACTATGTGTGCGAACATAATA-A
1 GCACTATGTGTGCG-ATTTACTATA
30394786 GCACTATGTGTGC
1 GCACTATGTGTGC
30394799 AACGTTTGGT
Statistics
Matches: 78, Mismatches: 6, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
24 73 0.94
25 5 0.06
ACGTcount: A:0.25, C:0.17, G:0.24, T:0.34
Consensus pattern (24 bp):
GCACTATGTGTGCGATTTACTATA
Found at i:30401228 original size:13 final size:15
Alignment explanation
Indices: 30401198--30401228 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
30401188 TTCCAGATTT
30401198 TCTTTTCTACCTCTC
1 TCTTTTCTACCTCTC
30401213 TCTTTTCTACCTCTC
1 TCTTTTCTACCTCTC
30401228 T
1 T
30401229 GGAAAGTAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.06, C:0.39, G:0.00, T:0.55
Consensus pattern (15 bp):
TCTTTTCTACCTCTC
Found at i:30401314 original size:15 final size:14
Alignment explanation
Indices: 30401272--30401321 Score: 50
Period size: 15 Copynumber: 3.5 Consensus size: 14
30401262 ATAACTTTGA
*
30401272 ATGCAAATGATGTG
1 ATGCAAATGATGAG
30401286 ATG-AAATGTTATGAG
1 ATGCAAATG--ATGAG
30401301 ATGCAAATGCATGA-
1 ATGCAAATG-ATGAG
30401315 ATGCAAA
1 ATGCAAA
30401322 AAGAATATCG
Statistics
Matches: 31, Mismatches: 2, Indels: 6
0.79 0.05 0.15
Matches are distributed among these distances:
13 5 0.16
14 10 0.32
15 11 0.35
16 5 0.16
ACGTcount: A:0.42, C:0.08, G:0.24, T:0.26
Consensus pattern (14 bp):
ATGCAAATGATGAG
Found at i:30408716 original size:27 final size:28
Alignment explanation
Indices: 30408679--30408818 Score: 166
Period size: 27 Copynumber: 5.2 Consensus size: 28
30408669 AGCATAGCTG
* *
30408679 CCAGA-ACAGATA-ATGTGACAGAGTCA
1 CCAGATACAGATATATGTGGCAGAGCCA
30408705 CCAGATACAGATA-ATCGTGGCAGAGCCA
1 CCAGATACAGATATAT-GTGGCAGAGCCA
*
30408733 CCAGA-ATAGATATATGTGGCAGAGCCA
1 CCAGATACAGATATATGTGGCAGAGCCA
* *
30408760 CCAGAT-CAGATATTTGTGGCATAGCCA
1 CCAGATACAGATATATGTGGCAGAGCCA
* *
30408787 CCAGAT-CAGATATTTGTGGCATAGCCA
1 CCAGATACAGATATATGTGGCAGAGCCA
30408814 CCAGA
1 CCAGA
30408819 ACGCTTCCTC
Statistics
Matches: 104, Mismatches: 6, Indels: 7
0.89 0.05 0.06
Matches are distributed among these distances:
26 5 0.05
27 82 0.79
28 17 0.16
ACGTcount: A:0.35, C:0.22, G:0.24, T:0.19
Consensus pattern (28 bp):
CCAGATACAGATATATGTGGCAGAGCCA
Found at i:30410466 original size:26 final size:26
Alignment explanation
Indices: 30410430--30410539 Score: 184
Period size: 26 Copynumber: 4.2 Consensus size: 26
30410420 CATGAAATTC
30410430 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
30410456 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
* *
30410482 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
* *
30410508 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
30410534 TTATCA
1 TTATCA
30410540 ATTTGTATCA
Statistics
Matches: 82, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
26 82 1.00
ACGTcount: A:0.36, C:0.25, G:0.05, T:0.34
Consensus pattern (26 bp):
TTATCATGAAACATTTACCTAACCCA
Found at i:30412817 original size:39 final size:39
Alignment explanation
Indices: 30412768--30412921 Score: 240
Period size: 39 Copynumber: 3.9 Consensus size: 39
30412758 AGTTGATTCC
*
30412768 ACTCCTCCCATGCTATTTTGTTTTATTATTAATTAAAACT
1 ACTCC-CCCATACTATTTTGTTTTATTATTAATTAAAACT
30412808 ACTCCCCCATACTATTTTGTTTTATTATTAATTAAAACT
1 ACTCCCCCATACTATTTTGTTTTATTATTAATTAAAACT
*
30412847 ACT--CCCATACTATTTTGTTTTATTATTAATTAAAACC
1 ACTCCCCCATACTATTTTGTTTTATTATTAATTAAAACT
* *
30412884 ATTCCCCCATACTATTTTATTTTTATTATTAATTAAAA
1 ACTCCCCCATACTATTTT-GTTTTATTATTAATTAAAA
30412922 TCATACTTTA
Statistics
Matches: 107, Mismatches: 4, Indels: 6
0.91 0.03 0.05
Matches are distributed among these distances:
37 35 0.33
39 49 0.46
40 23 0.21
ACGTcount: A:0.31, C:0.19, G:0.03, T:0.47
Consensus pattern (39 bp):
ACTCCCCCATACTATTTTGTTTTATTATTAATTAAAACT
Found at i:30412863 original size:76 final size:77
Alignment explanation
Indices: 30412772--30412921 Score: 257
Period size: 76 Copynumber: 2.0 Consensus size: 77
30412762 GATTCCACTC
* *
30412772 CTCCCATGCTATTTTGTTTTATTATTAATTAAAACTACTCCCCCATACTATTTT-GTTTTATTAT
1 CTCCCATACTATTTTGTTTTATTATTAATTAAAACCACTCCCCCATACTATTTTAGTTTTATTAT
30412836 TAATTAAAACTA
66 TAATTAAAACTA
* *
30412848 CTCCCATACTATTTTGTTTTATTATTAATTAAAACCATTCCCCCATACTATTTTATTTTTATTAT
1 CTCCCATACTATTTTGTTTTATTATTAATTAAAACCACTCCCCCATACTATTTTAGTTTTATTAT
30412913 TAATTAAAA
66 TAATTAAAA
30412922 TCATACTTTA
Statistics
Matches: 69, Mismatches: 4, Indels: 1
0.93 0.05 0.01
Matches are distributed among these distances:
76 51 0.74
77 18 0.26
ACGTcount: A:0.31, C:0.18, G:0.03, T:0.48
Consensus pattern (77 bp):
CTCCCATACTATTTTGTTTTATTATTAATTAAAACCACTCCCCCATACTATTTTAGTTTTATTAT
TAATTAAAACTA
Found at i:30413578 original size:22 final size:23
Alignment explanation
Indices: 30413530--30413586 Score: 71
Period size: 22 Copynumber: 2.5 Consensus size: 23
30413520 AACCCCCTCT
**
30413530 AATACAATCTCTTCTCTCCCCAA
1 AATACAATCGATTCTCTCCCCAA
*
30413553 AATACAATCGATTCT-TCCTCAA
1 AATACAATCGATTCTCTCCCCAA
*
30413575 AATACCATCGAT
1 AATACAATCGAT
30413587 CCCCCCCTTT
Statistics
Matches: 30, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
22 17 0.57
23 13 0.43
ACGTcount: A:0.35, C:0.32, G:0.04, T:0.30
Consensus pattern (23 bp):
AATACAATCGATTCTCTCCCCAA
Found at i:30425890 original size:74 final size:75
Alignment explanation
Indices: 30425683--30426224 Score: 601
Period size: 75 Copynumber: 7.1 Consensus size: 75
30425673 TGATGTTTTT
*
30425683 ATTTCTG--TTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGA
1 ATTTCTGTCTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGCTGA
*
30425746 GGTAATTTCA
66 GGTATTTTCA
* * * ** * *
30425756 ATTTCTATTTTTCAAAAAAATCAACTCATATTACGAGAAATGAGTTGAGCCCCAAGACACGTTGA
1 ATTTCTGTCTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGCTGA
30425821 GGTATTTTCA
66 GGTATTTTCA
* *
30425831 ATTTCTGTCTTTC-AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAAACACGTTGA
1 ATTTCTGTCTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGCTGA
30425895 GGTATTTTCA
66 GGTATTTTCA
* ** *
30425905 ATTTTTGTCTTTCAAAAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGA
1 ATTTCTGTCTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGCTGA
*
30425970 GCTATTTTCA
66 GGTATTTTCA
* * * *
30425980 ATTTCTGTCTTTCAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAACATC-GGTTCACATG
1 ATTTCTGTCTTTC-AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAG---ACACG
*
30426044 CTGAGGTATTTTTA
62 CTGAGGTATTTTCA
* * *
30426058 ATTTCT-ACTTTTCAAAAAAATCAATCAACTGATATTGCGAGAGGTGAGTTGAACCTCAA-ATCA
1 ATTTCTGTC-TTTC--AAAAA--AATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGA-CA
30426121 CGCACTGAGGTATTTTCA
60 CG--CTGAGGTATTTTCA
* * * * *
30426139 ATTTCTGTTTTTCAAAAAAAAAAAATCAACTCATATTACGAGAGGTGAGTTAAGCCTTAGGTCAC
1 ATTTCTGTCTTTC-----AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAG--AC
*
30426204 ACGCTGAGATATTTTCA
59 ACGCTGAGGTATTTTCA
30426221 ATTT
1 ATTT
30426225 TTTTTTTGCT
Statistics
Matches: 402, Mismatches: 45, Indels: 35
0.83 0.09 0.07
Matches are distributed among these distances:
73 6 0.01
74 68 0.17
75 140 0.35
76 36 0.09
77 1 0.00
78 26 0.06
79 9 0.02
81 56 0.14
82 48 0.12
84 11 0.03
85 1 0.00
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.32
Consensus pattern (75 bp):
ATTTCTGTCTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGCTGA
GGTATTTTCA
Found at i:30425965 original size:149 final size:149
Alignment explanation
Indices: 30425683--30426224 Score: 615
Period size: 149 Copynumber: 3.5 Consensus size: 149
30425673 TGATGTTTTT
**
30425683 ATTTCTG--TTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGA
1 ATTTCTGTCTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAAACACGCTGA
* * * *
30425746 GGTAATTTCAATTTCTATTTTTCAAAAAAATCAACTCATATTACGAGAAATGAGTTGAGCCCCAA
66 GGTATTTTCAATTTCT-TCTTTCAAAAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAA
30425811 GACACGTTGAGGTATTTTCA
130 GACACGTTGAGGTATTTTCA
*
30425831 ATTTCTGTCTTTC-AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAAACACGTTGA
1 ATTTCTGTCTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAAACACGCTGA
*
30425895 GGTATTTTCAATTTTTGTCTTTCAAAAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAA
66 GGTATTTTCAATTTCT-TCTTTCAAAAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAA
*
30425960 GACACGTTGAGCTATTTTCA
130 GACACGTTGAGGTATTTTCA
* * *** *
30425980 ATTTCTGTCTTTCAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAACATCGGTTCACATGC
1 ATTTCTGTCTTTC-AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC--AAAACACGC
* * * **
30426045 TGAGGTATTTTTAATTTCTACTTTTCAAAAAAATCAATCAACTGATATTGCGAGAGGTGAGTTGA
63 TGAGGTATTTTCAATTTCTTC-TTTC--AAAAA--AATCAACTCATATTGCGAGAAATGAGTTGA
* *
30426110 ACCTCAA-ATCACGCACTGAGGTATTTTCA
123 GCCTCAAGA-CACG--TTGAGGTATTTTCA
* * * * **
30426139 ATTTCTGTTTTTCAAAAAAAAAAAATCAACTCATATTACGAGAGGTGAGTTAAGCCTTAGGTCAC
1 ATTTCTGTCTTTC-----AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCA--AAAC
*
30426204 ACGCTGAGATATTTTCAATTT
59 ACGCTGAGGTATTTTCAATTT
30426225 TTTTTTTGCT
Statistics
Matches: 338, Mismatches: 36, Indels: 25
0.85 0.09 0.06
Matches are distributed among these distances:
148 7 0.02
149 139 0.41
150 4 0.01
151 37 0.11
152 1 0.00
153 25 0.07
155 5 0.01
156 1 0.00
157 37 0.11
159 24 0.07
163 58 0.17
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.32
Consensus pattern (149 bp):
ATTTCTGTCTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAAACACGCTGA
GGTATTTTCAATTTCTTCTTTCAAAAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAG
ACACGTTGAGGTATTTTCA
Found at i:30426283 original size:81 final size:82
Alignment explanation
Indices: 30426163--30426314 Score: 197
Period size: 81 Copynumber: 1.9 Consensus size: 82
30426153 AAAAAAAAAA
*
30426163 ATCAACTCATATTACGAGAGGTGAGTTAAGCCTTAGGTCACA-CGCTGAGATATTTTCAATTT-T
1 ATCAACTCATATTACGAGAGGTGAGTTAA-CCTTAGGTCACATC-CCGAGATATTTTCAATTTCT
30426226 T-TTTTTGCTTTTTCAAAG
64 TGTTTTTGCTTTTTCAAAG
* *
30426244 ATCAACTCATAATT-CGAGAGGTGAGTTGAA-CTTCGGGTCACATCCCGAGCTATTTTCAATTTC
1 ATCAACTCAT-ATTACGAGAGGTGAGTT-AACCTT-AGGTCACATCCCGAGATATTTTCAATTTC
30426307 TTGTTTTT
63 TTGTTTTT
30426315 CAATAAAGAA
Statistics
Matches: 62, Mismatches: 3, Indels: 10
0.83 0.04 0.13
Matches are distributed among these distances:
80 3 0.05
81 46 0.74
82 8 0.13
83 5 0.08
ACGTcount: A:0.26, C:0.18, G:0.18, T:0.39
Consensus pattern (82 bp):
ATCAACTCATATTACGAGAGGTGAGTTAACCTTAGGTCACATCCCGAGATATTTTCAATTTCTTG
TTTTTGCTTTTTCAAAG
Found at i:30426482 original size:13 final size:13
Alignment explanation
Indices: 30426464--30426488 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
30426454 CCAAAATTTC
30426464 AAAAAAATAAAAT
1 AAAAAAATAAAAT
30426477 AAAAAAATAAAA
1 AAAAAAATAAAA
30426489 AAATTTCAAA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.88, C:0.00, G:0.00, T:0.12
Consensus pattern (13 bp):
AAAAAAATAAAAT
Found at i:30426823 original size:16 final size:15
Alignment explanation
Indices: 30426791--30426839 Score: 66
Period size: 15 Copynumber: 3.4 Consensus size: 15
30426781 AAAAAAGAAC
30426791 AAAAAATTCCAGCAA
1 AAAAAATTCCAGCAA
*
30426806 AAAAAATTTCAGCAA
1 AAAAAATTCCAGCAA
*
30426821 AAAAAAATCCA--AA
1 AAAAAATTCCAGCAA
30426834 AAAAAA
1 AAAAAA
30426840 ACACTAGCAA
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
13 8 0.26
15 23 0.74
ACGTcount: A:0.69, C:0.14, G:0.04, T:0.12
Consensus pattern (15 bp):
AAAAAATTCCAGCAA
Found at i:30427072 original size:19 final size:20
Alignment explanation
Indices: 30427048--30427089 Score: 59
Period size: 19 Copynumber: 2.1 Consensus size: 20
30427038 TGTTTTCATA
*
30427048 TTTTCTTTCCTT-GGTTTTT
1 TTTTCTTTCCTTAGATTTTT
*
30427067 TTTTCTTTCTTTAGATTTTT
1 TTTTCTTTCCTTAGATTTTT
30427087 TTT
1 TTT
30427090 ATTTTATTTT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
19 11 0.55
20 9 0.45
ACGTcount: A:0.05, C:0.12, G:0.07, T:0.76
Consensus pattern (20 bp):
TTTTCTTTCCTTAGATTTTT
Found at i:30441297 original size:11 final size:11
Alignment explanation
Indices: 30441281--30441307 Score: 54
Period size: 11 Copynumber: 2.5 Consensus size: 11
30441271 GAGGCAAAAG
30441281 CCCCTCCCCCT
1 CCCCTCCCCCT
30441292 CCCCTCCCCCT
1 CCCCTCCCCCT
30441303 CCCCT
1 CCCCT
30441308 GCCTTAAACT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 16 1.00
ACGTcount: A:0.00, C:0.81, G:0.00, T:0.19
Consensus pattern (11 bp):
CCCCTCCCCCT
Found at i:30442582 original size:22 final size:22
Alignment explanation
Indices: 30442539--30442582 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 22
30442529 TTATCACTTG
*
30442539 AAAATTTAAAAAAAAAGTATAT
1 AAAATTTAAAAAAAAAGAATAT
30442561 AAAATTTAAAAATAAAA-AATAT
1 AAAATTTAAAAA-AAAAGAATAT
30442583 TTTAGAACAT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
22 16 0.80
23 4 0.20
ACGTcount: A:0.70, C:0.00, G:0.02, T:0.27
Consensus pattern (22 bp):
AAAATTTAAAAAAAAAGAATAT
Found at i:30443702 original size:208 final size:210
Alignment explanation
Indices: 30443341--30443762 Score: 778
Period size: 208 Copynumber: 2.0 Consensus size: 210
30443331 CCTTGTTTAT
30443341 TTTATTTTATCTTTCAATTTTATTTTGTTTCTTTTTACATACTAAAGTAAAAATAAGGGGAAGAA
1 TTTATTTTATCTTTCAATTTTATTTTGTTTC-TTTTACATACTAAAGTAAAAATAAGGGGAAGAA
*
30443406 GTTTACCCATTTTGGAATTGCCGAAAATGGGTTTTTTTTAGGTCCAACCACCGTGTACGGTGGTG
65 GTTTACCCATTTTGGAATTGCCGAAAAAGGGTTTTTTTTAGGTCCAACCACCGTGTACGGTGGTG
30443471 CCAACACCGGCTCGTGGAGGTCCGGTGGCCGGAGCAAGGCCAGACCGATGGCCGGATTTAAATAG
130 CCAACACCGGCTCGTGGAGGTCCGGTGGCCGGAGCAAGGCCAGACCGATGGCCGGATTTAAATAG
30443536 GAGGGGAAGAGTGTTA
195 GAGGGGAAGAGTGTTA
30443552 TTTATTTTATCTTTCAATTTTATTTTGTTTC-TTTA-ATACTAAAGTAAAAATAAGGGGAAGAAG
1 TTTATTTTATCTTTCAATTTTATTTTGTTTCTTTTACATACTAAAGTAAAAATAAGGGGAAGAAG
30443615 TTTACCCATTTTGGAATTGCCGAAAAAGGGTTTTTTTTGAGGTCCAACCACCGTGTA-GGTGGTG
66 TTTACCCATTTTGGAATTGCCGAAAAAGGGTTTTTTTT-AGGTCCAACCACCGTGTACGGTGGTG
* *
30443679 CCAACACTGGCTCGTGGAGGTCCGGTGGCCGGAGCAAGGCCGGACCGATGGCCGGATTTAAATAG
130 CCAACACCGGCTCGTGGAGGTCCGGTGGCCGGAGCAAGGCCAGACCGATGGCCGGATTTAAATAG
30443744 GAGGGGAAGAGTGTTA
195 GAGGGGAAGAGTGTTA
30443760 TTT
1 TTT
30443763 TTAATAATAA
Statistics
Matches: 207, Mismatches: 3, Indels: 5
0.96 0.01 0.02
Matches are distributed among these distances:
208 154 0.74
209 22 0.11
211 31 0.15
ACGTcount: A:0.26, C:0.16, G:0.27, T:0.32
Consensus pattern (210 bp):
TTTATTTTATCTTTCAATTTTATTTTGTTTCTTTTACATACTAAAGTAAAAATAAGGGGAAGAAG
TTTACCCATTTTGGAATTGCCGAAAAAGGGTTTTTTTTAGGTCCAACCACCGTGTACGGTGGTGC
CAACACCGGCTCGTGGAGGTCCGGTGGCCGGAGCAAGGCCAGACCGATGGCCGGATTTAAATAGG
AGGGGAAGAGTGTTA
Found at i:30444174 original size:22 final size:24
Alignment explanation
Indices: 30444145--30444197 Score: 72
Period size: 25 Copynumber: 2.2 Consensus size: 24
30444135 TTATATTTAC
*
30444145 TTTTTTTAA-TATTATTACCATTA
1 TTTTTTAAACTATTATTACCATTA
*
30444168 TTTTTTAAAACTATTATTACTATTA
1 TTTTTT-AAACTATTATTACCATTA
30444193 TTTTT
1 TTTTT
30444198 ATTATCCGTA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
23 6 0.23
24 2 0.08
25 18 0.69
ACGTcount: A:0.30, C:0.08, G:0.00, T:0.62
Consensus pattern (24 bp):
TTTTTTAAACTATTATTACCATTA
Found at i:30444543 original size:125 final size:127
Alignment explanation
Indices: 30444361--30444622 Score: 332
Period size: 125 Copynumber: 2.1 Consensus size: 127
30444351 ATTTTTCAAG
* * * *
30444361 TAAAGGCAATATTCAGTACTTGGAAATTCGAGAAATCGTGTCCTAACGTACTGGGTTTCGGTTTT
1 TAAAGGCAATATTCAGTACTTAGAAATTCGAGAAATCGTGCCCTAACGTACTGGGTTTCGATTAT
* *
30444426 TCATTTGATCTAAGTAACC-AATTATCC-TTTT-AAATTAAAATACATGAGTTTTAAATAAAA
66 TCATTTGATCTAAATAACCGAA-TAACCTTTTTAAAATTAAAATACATGAGTTTTAAATAAAA
* * * * * * *
30444486 TAAAGGCAATATTCTGTATTTAGAAATTCGAGTAGTTGTGCCCTAATGTACTGGGTTTTGATTAT
1 TAAAGGCAATATTCAGTACTTAGAAATTCGAGAAATCGTGCCCTAACGTACTGGGTTTCGATTAT
* * * *
30444551 TCGTTTGATCTAAATATCCGAATAACCTTTTTAAAATTTAAATACATGAGTTTTAAATGAAA
66 TCATTTGATCTAAATAACCGAATAACCTTTTTAAAATTAAAATACATGAGTTTTAAATAAAA
30444613 TAGAAGGCAA
1 TA-AAGGCAA
30444623 GCTCATACTC
Statistics
Matches: 116, Mismatches: 17, Indels: 5
0.84 0.12 0.04
Matches are distributed among these distances:
125 74 0.64
126 6 0.05
127 29 0.25
128 7 0.06
ACGTcount: A:0.35, C:0.12, G:0.16, T:0.37
Consensus pattern (127 bp):
TAAAGGCAATATTCAGTACTTAGAAATTCGAGAAATCGTGCCCTAACGTACTGGGTTTCGATTAT
TCATTTGATCTAAATAACCGAATAACCTTTTTAAAATTAAAATACATGAGTTTTAAATAAAA
Found at i:30450417 original size:1 final size:1
Alignment explanation
Indices: 30450411--30450462 Score: 50
Period size: 1 Copynumber: 52.0 Consensus size: 1
30450401 TTAGTACTTA
* * * ** *
30450411 TTTTTTTCTTTTTTTTTTTTTTCTTTTTTTTCTTTTTTGATTTTATTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
30450463 AAATTTTATT
Statistics
Matches: 40, Mismatches: 11, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
1 40 1.00
ACGTcount: A:0.04, C:0.06, G:0.02, T:0.88
Consensus pattern (1 bp):
T
Found at i:30450431 original size:15 final size:15
Alignment explanation
Indices: 30450411--30450462 Score: 68
Period size: 15 Copynumber: 3.3 Consensus size: 15
30450401 TTAGTACTTA
30450411 TTTTTTTCTTTTTTT
1 TTTTTTTCTTTTTTT
30450426 TTTTTTTCTTTTTTT
1 TTTTTTTCTTTTTTT
*
30450441 TCTTTTTTGATTTTATTT
1 T-TTTTTT-CTTTT-TTT
30450459 TTTT
1 TTTT
30450463 AAATTTTATT
Statistics
Matches: 33, Mismatches: 1, Indels: 4
0.87 0.03 0.11
Matches are distributed among these distances:
15 16 0.48
16 6 0.18
17 7 0.21
18 4 0.12
ACGTcount: A:0.04, C:0.06, G:0.02, T:0.88
Consensus pattern (15 bp):
TTTTTTTCTTTTTTT
Found at i:30450469 original size:21 final size:21
Alignment explanation
Indices: 30450445--30450484 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
30450435 TTTTTTTCTT
*
30450445 TTTTGATT-TTATTTTTTTAAA
1 TTTT-ATTATTATTTATTTAAA
30450466 TTTTATTATTATTTATTTA
1 TTTTATTATTATTTATTTA
30450485 CTTAGGAATA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 3 0.18
21 14 0.82
ACGTcount: A:0.25, C:0.00, G:0.03, T:0.72
Consensus pattern (21 bp):
TTTTATTATTATTTATTTAAA
Found at i:30450746 original size:118 final size:118
Alignment explanation
Indices: 30450587--30450817 Score: 390
Period size: 118 Copynumber: 2.0 Consensus size: 118
30450577 TATTTCCGGT
30450587 TAGCGGAGTTTTACCCAACACGTCACACAACCTTTTGACGCGAAGTAGAATGACAACCCAAGCAC
1 TAGCGGAGTTTTACCCAACACGTCACACAACCTTTTGACGCGAAGTAGAATGACAACCCAAGCAC
* *
30450652 CCTACCCCGGTTACTCAGTCAGTCACGATTTGAGCTATACTCATAACCTTGGC
66 CCTACCCCGGTTACTCAGTCAGTCACGATCTAAGCTATACTCATAACCTTGGC
**** *
30450705 TAGCGGAGTTTTACTTGTCACGTCACACAACCTTTTGACGCGAAGTATAATGACAACCCAAGCAC
1 TAGCGGAGTTTTACCCAACACGTCACACAACCTTTTGACGCGAAGTAGAATGACAACCCAAGCAC
*
30450770 CCTACCCCGGTTACTCAGTCAGTCACGATCTAAGCTGTACTCATAACC
66 CCTACCCCGGTTACTCAGTCAGTCACGATCTAAGCTATACTCATAACC
30450818 ATGGAAAACA
Statistics
Matches: 105, Mismatches: 8, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
118 105 1.00
ACGTcount: A:0.29, C:0.30, G:0.17, T:0.24
Consensus pattern (118 bp):
TAGCGGAGTTTTACCCAACACGTCACACAACCTTTTGACGCGAAGTAGAATGACAACCCAAGCAC
CCTACCCCGGTTACTCAGTCAGTCACGATCTAAGCTATACTCATAACCTTGGC
Found at i:30451682 original size:42 final size:42
Alignment explanation
Indices: 30451610--30451712 Score: 131
Period size: 42 Copynumber: 2.5 Consensus size: 42
30451600 GGGATTCTAA
*
30451610 GGCTA-AATAG-ACTGTTTGGCTGCAGAGATATAGCATTCTG
1 GGCTAGAATAGAACTGTTTGGCAGCAGAGATATAGCATTCTG
* * *
30451650 GGCTAGAATAGAACTGTTTGGCAGCAGGGATATGGCATTTTG
1 GGCTAGAATAGAACTGTTTGGCAGCAGAGATATAGCATTCTG
*
30451692 GG-TTGTAATAGAACTGTTTGG
1 GGCTAG-AATAGAACTGTTTGG
30451713 TACCATGGAT
Statistics
Matches: 55, Mismatches: 5, Indels: 4
0.86 0.08 0.06
Matches are distributed among these distances:
40 5 0.09
41 7 0.13
42 43 0.78
ACGTcount: A:0.26, C:0.12, G:0.31, T:0.31
Consensus pattern (42 bp):
GGCTAGAATAGAACTGTTTGGCAGCAGAGATATAGCATTCTG
Found at i:30451818 original size:7 final size:7
Alignment explanation
Indices: 30451806--30451874 Score: 65
Period size: 7 Copynumber: 9.9 Consensus size: 7
30451796 AAATAAAATA
30451806 AAATAAT
1 AAATAAT
30451813 AAATAAT
1 AAATAAT
30451820 AAATAAT
1 AAATAAT
30451827 AAATAAT
1 AAATAAT
30451834 AAA-AGA-
1 AAATA-AT
*
30451840 AAATAAAGGA
1 AAAT-AA--T
30451850 AAATAAT
1 AAATAAT
30451857 AAATAA-
1 AAATAAT
30451863 AAATAA-
1 AAATAAT
30451869 AAATAA
1 AAATAA
30451875 ATATTGGGTT
Statistics
Matches: 55, Mismatches: 1, Indels: 13
0.80 0.01 0.19
Matches are distributed among these distances:
6 16 0.29
7 32 0.58
8 1 0.02
9 2 0.04
10 4 0.07
ACGTcount: A:0.75, C:0.00, G:0.04, T:0.20
Consensus pattern (7 bp):
AAATAAT
Found at i:30451837 original size:34 final size:35
Alignment explanation
Indices: 30451797--30451875 Score: 94
Period size: 34 Copynumber: 2.3 Consensus size: 35
30451787 ATTTAAATAA
*
30451797 AATAAAATAAAAT-AA-TAAATAATAAATAATAAAT
1 AATAAAATAAAATAAAGAAAATAATAAATAA-AAAT
*
30451831 AATAAAAGAAAATAAAGGAAAATAATAAATAAAAAT
1 AATAAAATAAAATAAA-GAAAATAATAAATAAAAAT
30451867 -A-AAAATAAA
1 AATAAAATAAA
30451876 TATTGGGTTG
Statistics
Matches: 39, Mismatches: 3, Indels: 6
0.81 0.06 0.12
Matches are distributed among these distances:
34 19 0.49
35 3 0.08
36 4 0.10
37 13 0.33
ACGTcount: A:0.76, C:0.00, G:0.04, T:0.20
Consensus pattern (35 bp):
AATAAAATAAAATAAAGAAAATAATAAATAAAAAT
Found at i:30451876 original size:10 final size:10
Alignment explanation
Indices: 30451790--30451877 Score: 60
Period size: 10 Copynumber: 8.6 Consensus size: 10
30451780 TATTAATATT
30451790 TAAAT-AAAA
1 TAAATAAAAA
30451799 TAAAATAAAATAA
1 T-AAAT-AAA-AA
30451812 TAAATAATAAA
1 TAAATAA-AAA
30451823 T-AATAAATAA
1 TAAATAAA-AA
30451833 TAAA-AGAAAA
1 TAAATA-AAAA
**
30451843 TAAAGGAAAA
1 TAAATAAAAA
30451853 T-AATAAATAA
1 TAAATAAA-AA
30451863 -AAATAAAAA
1 TAAATAAAAA
30451872 TAAATA
1 TAAATA
30451878 TTGGGTTGCC
Statistics
Matches: 64, Mismatches: 3, Indels: 23
0.71 0.03 0.26
Matches are distributed among these distances:
9 8 0.12
10 37 0.58
11 9 0.14
12 7 0.11
13 3 0.05
ACGTcount: A:0.75, C:0.00, G:0.03, T:0.22
Consensus pattern (10 bp):
TAAATAAAAA
Found at i:30456070 original size:26 final size:26
Alignment explanation
Indices: 30456033--30456090 Score: 89
Period size: 26 Copynumber: 2.2 Consensus size: 26
30456023 TGATACAAAT
30456033 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATAGGTTAGGTAAATGTTCCA
* *
30456059 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTCCA
*
30456085 TAATAA
1 TGATAA
30456091 GAATTTCATG
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
26 29 1.00
ACGTcount: A:0.36, C:0.05, G:0.22, T:0.36
Consensus pattern (26 bp):
TGATAATAGGTTAGGTAAATGTTCCA
Found at i:30459687 original size:23 final size:22
Alignment explanation
Indices: 30459661--30459721 Score: 58
Period size: 18 Copynumber: 2.8 Consensus size: 22
30459651 AATCGTTTTG
30459661 TTATATATTTATTTCAAATTATT
1 TTATATA-TTATTTCAAATTATT
*
30459684 TTATA-A-T-TTT-AAGTTATT
1 TTATATATTATTTCAAATTATT
30459702 TTATATTATGTATTTCAAAT
1 TTATA-TAT-TATTTCAAAT
30459722 AACTCTTTTT
Statistics
Matches: 30, Mismatches: 2, Indels: 11
0.70 0.05 0.26
Matches are distributed among these distances:
18 12 0.40
19 3 0.10
20 2 0.07
22 2 0.07
23 8 0.27
24 3 0.10
ACGTcount: A:0.34, C:0.03, G:0.03, T:0.59
Consensus pattern (22 bp):
TTATATATTATTTCAAATTATT
Found at i:30459954 original size:27 final size:25
Alignment explanation
Indices: 30459905--30459978 Score: 85
Period size: 27 Copynumber: 2.8 Consensus size: 25
30459895 TGTATTATAG
* * * *
30459905 ATTTTAAAATGCTTTATACATTATTT
1 ATTTTAAATTGTTTTAT-TATTATTC
30459931 ATTTTAAACTTGTTTTATGTATTATTC
1 ATTTTAAA-TTGTTTTAT-TATTATTC
30459958 ATTTTAAATTGTTTTATTATT
1 ATTTTAAATTGTTTTATTATT
30459979 TACTTTAATT
Statistics
Matches: 42, Mismatches: 5, Indels: 3
0.84 0.10 0.06
Matches are distributed among these distances:
25 4 0.10
26 17 0.40
27 21 0.50
ACGTcount: A:0.30, C:0.05, G:0.05, T:0.59
Consensus pattern (25 bp):
ATTTTAAATTGTTTTATTATTATTC
Found at i:30462597 original size:14 final size:14
Alignment explanation
Indices: 30462564--30462597 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
30462554 ATAAAAGTAT
30462564 ATATATGTGTAATA
1 ATATATGTGTAATA
* *
30462578 AAATATGTGTACTA
1 ATATATGTGTAATA
30462592 ATATAT
1 ATATAT
30462598 AATAAAATAT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.44, C:0.03, G:0.12, T:0.41
Consensus pattern (14 bp):
ATATATGTGTAATA
Found at i:30462831 original size:21 final size:21
Alignment explanation
Indices: 30462805--30462849 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
30462795 TAAATAATAG
30462805 TATTAGAAATAAACCATATA-A
1 TATTAGAAATAAA-CATATATA
* *
30462826 TATTAGATATATACATATATA
1 TATTAGAAATAAACATATATA
30462847 TAT
1 TAT
30462850 ATATATATAT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 6 0.29
21 15 0.71
ACGTcount: A:0.51, C:0.07, G:0.04, T:0.38
Consensus pattern (21 bp):
TATTAGAAATAAACATATATA
Found at i:30462845 original size:2 final size:2
Alignment explanation
Indices: 30462820--30462866 Score: 62
Period size: 2 Copynumber: 24.5 Consensus size: 2
30462810 GAAATAAACC
* *
30462820 AT AT A- AT AT -T AG AT AT AT AC AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
30462860 AT AT AT A
1 AT AT AT A
30462867 ATAGTATGAA
Statistics
Matches: 39, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
1 2 0.05
2 37 0.95
ACGTcount: A:0.51, C:0.02, G:0.02, T:0.45
Consensus pattern (2 bp):
AT
Found at i:30462913 original size:20 final size:22
Alignment explanation
Indices: 30462879--30462930 Score: 72
Period size: 21 Copynumber: 2.4 Consensus size: 22
30462869 AGTATGAAAG
30462879 AAAAATATAACTAATAATAT-TA
1 AAAAATAT-ACTAATAATATATA
30462901 AAAAATATA-TAATAATATATA
1 AAAAATATACTAATAATATATA
*
30462922 TAAAATATA
1 AAAAATATA
30462931 ATATTAAGGA
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
20 9 0.32
21 11 0.39
22 8 0.29
ACGTcount: A:0.65, C:0.02, G:0.00, T:0.33
Consensus pattern (22 bp):
AAAAATATACTAATAATATATA
Found at i:30463150 original size:13 final size:14
Alignment explanation
Indices: 30463132--30463162 Score: 55
Period size: 13 Copynumber: 2.3 Consensus size: 14
30463122 ATGTATGAAT
30463132 ATATACATATA-TA
1 ATATACATATATTA
30463145 ATATACATATATTA
1 ATATACATATATTA
30463159 ATAT
1 ATAT
30463163 TAATAATAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 11 0.65
14 6 0.35
ACGTcount: A:0.52, C:0.06, G:0.00, T:0.42
Consensus pattern (14 bp):
ATATACATATATTA
Found at i:30463738 original size:14 final size:14
Alignment explanation
Indices: 30463721--30463747 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
30463711 AAAAAAAGAG
30463721 AAAAGGAGAGGGGA
1 AAAAGGAGAGGGGA
30463735 AAAAGGAGAGGGG
1 AAAAGGAGAGGGG
30463748 GAGAGGGGAG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.48, C:0.00, G:0.52, T:0.00
Consensus pattern (14 bp):
AAAAGGAGAGGGGA
Found at i:30468050 original size:10 final size:10
Alignment explanation
Indices: 30468023--30468061 Score: 53
Period size: 10 Copynumber: 3.9 Consensus size: 10
30468013 TTAAATTCTA
30468023 AAAGATAAAT
1 AAAGATAAAT
30468033 ACAA-ATAAAT
1 A-AAGATAAAT
*
30468043 AAAGATAATT
1 AAAGATAAAT
30468053 AAAGATAAA
1 AAAGATAAA
30468062 AGCTAAAATT
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
9 2 0.08
10 21 0.84
11 2 0.08
ACGTcount: A:0.69, C:0.03, G:0.08, T:0.21
Consensus pattern (10 bp):
AAAGATAAAT
Found at i:30468097 original size:13 final size:12
Alignment explanation
Indices: 30468079--30468111 Score: 50
Period size: 13 Copynumber: 2.8 Consensus size: 12
30468069 ATTAAATCTA
30468079 AATAATAATCCTT
1 AATAATAATCC-T
30468092 AATAATAATCCT
1 AATAATAATCCT
30468104 AAT-ATAAT
1 AATAATAAT
30468112 TGGAATTTAA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
11 5 0.25
12 4 0.20
13 11 0.55
ACGTcount: A:0.52, C:0.12, G:0.00, T:0.36
Consensus pattern (12 bp):
AATAATAATCCT
Found at i:30469994 original size:5 final size:5
Alignment explanation
Indices: 30469984--30470081 Score: 67
Period size: 5 Copynumber: 18.6 Consensus size: 5
30469974 ATTAATATCC
* * *
30469984 AAATA AAATA AAGTA ATAA-A TAATA AAATA AAATA AAGTAA TAAATA
1 AAATA AAATA AAATA A-AATA AAATA AAATA AAATA AAAT-A -AAATA
*
30470031 ATAAAA AAATA AAATAA AAATAA AAATA AGAA-A GAAA-A AAATA AAATA
1 A-AATA AAATA AAAT-A AAAT-A AAATA A-AATA -AAATA AAATA AAATA
30470079 AAA
1 AAA
30470082 ATAGGGTTGG
Statistics
Matches: 76, Mismatches: 8, Indels: 18
0.75 0.08 0.18
Matches are distributed among these distances:
4 5 0.07
5 47 0.62
6 21 0.28
7 3 0.04
ACGTcount: A:0.78, C:0.00, G:0.04, T:0.18
Consensus pattern (5 bp):
AAATA
Found at i:30470001 original size:8 final size:7
Alignment explanation
Indices: 30469990--30470084 Score: 56
Period size: 8 Copynumber: 13.1 Consensus size: 7
30469980 ATCCAAATAA
30469990 AATAAAGT
1 AATAAA-T
30469998 AATAAAT
1 AATAAAT
30470005 AATAAAAT
1 AAT-AAAT
30470013 AAAATAAAGT
1 --AATAAA-T
30470023 AATAAAT
1 AATAAAT
*
30470030 AATAAAAA
1 AAT-AAAT
30470038 AATAAAAT
1 AAT-AAAT
30470046 AA-AAAT
1 AATAAAT
30470052 AA-AAAT
1 AATAAAT
* *
30470058 AAGAAAG
1 AATAAAT
30470065 AA-AAA-
1 AATAAAT
30470070 AATAAAAT
1 AAT-AAAT
30470078 AA-AAAT
1 AATAAAT
30470084 A
1 A
30470085 GGGTTGGCTC
Statistics
Matches: 75, Mismatches: 3, Indels: 20
0.77 0.03 0.20
Matches are distributed among these distances:
5 2 0.03
6 20 0.27
7 16 0.21
8 30 0.40
9 3 0.04
10 4 0.05
ACGTcount: A:0.77, C:0.00, G:0.04, T:0.19
Consensus pattern (7 bp):
AATAAAT
Found at i:30470006 original size:12 final size:12
Alignment explanation
Indices: 30469989--30470031 Score: 52
Period size: 12 Copynumber: 3.5 Consensus size: 12
30469979 TATCCAAATA
30469989 AAATAAAGTAAT
1 AAATAAAGTAAT
*
30470001 AAATAATA-AAAT
1 AAATAA-AGTAAT
30470013 AAAATAAAGTAAT
1 -AAATAAAGTAAT
30470026 AAATAA
1 AAATAA
30470032 TAAAAAAATA
Statistics
Matches: 26, Mismatches: 2, Indels: 6
0.76 0.06 0.18
Matches are distributed among these distances:
12 16 0.62
13 10 0.38
ACGTcount: A:0.72, C:0.00, G:0.05, T:0.23
Consensus pattern (12 bp):
AAATAAAGTAAT
Found at i:30470006 original size:17 final size:17
Alignment explanation
Indices: 30469998--30470081 Score: 74
Period size: 17 Copynumber: 5.1 Consensus size: 17
30469988 AAAATAAAGT
30469998 AATAAATAATAAAATAA
1 AATAAATAATAAAATAA
30470015 AATAAAGTAAT-AAATAA
1 AATAAA-TAATAAAATAA
30470032 TAA-AAA-AATAAAATAAA
1 -AATAAATAATAAAAT-AA
*
30470049 AATAAA-AATAAGAA-AG
1 AATAAATAATAA-AATAA
30470065 AA-AAA-AATAAAATAA
1 AATAAATAATAAAATAA
30470080 AA
1 AA
30470082 ATAGGGTTGG
Statistics
Matches: 58, Mismatches: 2, Indels: 16
0.76 0.03 0.21
Matches are distributed among these distances:
14 2 0.03
15 14 0.24
16 9 0.16
17 25 0.43
18 8 0.14
ACGTcount: A:0.79, C:0.00, G:0.04, T:0.18
Consensus pattern (17 bp):
AATAAATAATAAAATAA
Found at i:30470010 original size:20 final size:16
Alignment explanation
Indices: 30469984--30470084 Score: 79
Period size: 15 Copynumber: 6.3 Consensus size: 16
30469974 ATTAATATCC
*
30469984 AAATAAAATAAAGTAA
1 AAATAAAATAAAATAA
30470000 TAAAT--AATAAAAT-A
1 -AAATAAAATAAAATAA
*
30470014 AAATAAAGTAATAAATAA
1 AAATAAAAT-A-AAATAA
30470032 TAAA-AAAATAAAATAA
1 -AAATAAAATAAAATAA
*
30470048 AAATAAAAATAAGAA-AG
1 AAAT-AAAATAA-AATAA
30470065 AAA-AAAATAAAATAA
1 AAATAAAATAAAATAA
30470080 AAATA
1 AAATA
30470085 GGGTTGGCTC
Statistics
Matches: 68, Mismatches: 5, Indels: 23
0.71 0.05 0.24
Matches are distributed among these distances:
13 4 0.06
14 3 0.04
15 23 0.34
16 8 0.12
17 20 0.29
18 7 0.10
19 3 0.04
ACGTcount: A:0.77, C:0.00, G:0.04, T:0.19
Consensus pattern (16 bp):
AAATAAAATAAAATAA
Found at i:30470012 original size:25 final size:24
Alignment explanation
Indices: 30469984--30470059 Score: 113
Period size: 25 Copynumber: 3.2 Consensus size: 24
30469974 ATTAATATCC
30469984 AAATAAAATAAAGTAATAAATAAT
1 AAATAAAATAAAGTAATAAATAAT
30470008 AAAATAAAATAAAGTAATAAATAAT
1 -AAATAAAATAAAGTAATAAATAAT
*
30470033 AAA-AAAATAAAATAA-AAATAA-
1 AAATAAAATAAAGTAATAAATAAT
30470054 AAATAA
1 AAATAA
30470060 GAAAGAAAAA
Statistics
Matches: 49, Mismatches: 1, Indels: 5
0.89 0.02 0.09
Matches are distributed among these distances:
21 3 0.06
22 8 0.16
23 11 0.22
24 3 0.06
25 24 0.49
ACGTcount: A:0.76, C:0.00, G:0.03, T:0.21
Consensus pattern (24 bp):
AAATAAAATAAAGTAATAAATAAT
Found at i:30470042 original size:11 final size:10
Alignment explanation
Indices: 30469984--30470084 Score: 69
Period size: 11 Copynumber: 9.5 Consensus size: 10
30469974 ATTAATATCC
*
30469984 AAATAAAATA
1 AAATAAAAAA
* *
30469994 AAGTAATAAA
1 AAATAAAAAA
* *
30470004 TAATAAAATA
1 AAATAAAAAA
*
30470014 AAATAAAGTAAT
1 AAATAAA--AAA
30470026 AAATAATAAAA
1 AAATAA-AAAA
30470037 AAATAAAATAA
1 AAATAAAA-AA
30470048 AAATAAAAATA
1 AAATAAAAA-A
*
30470059 AGAA-AGAAAA
1 A-AATAAAAAA
30470069 AAATAAAATAA
1 AAATAAAA-AA
30470080 AAATA
1 AAATA
30470085 GGGTTGGCTC
Statistics
Matches: 70, Mismatches: 13, Indels: 15
0.71 0.13 0.15
Matches are distributed among these distances:
9 2 0.03
10 27 0.39
11 31 0.44
12 9 0.13
13 1 0.01
ACGTcount: A:0.77, C:0.00, G:0.04, T:0.19
Consensus pattern (10 bp):
AAATAAAAAA
Found at i:30470059 original size:32 final size:32
Alignment explanation
Indices: 30469984--30470084 Score: 120
Period size: 32 Copynumber: 3.2 Consensus size: 32
30469974 ATTAATATCC
*
30469984 AAAT-AAAATAAAGTAAT-AAATAATAAAAT-A
1 AAATAAAAATAAA-TAATAAAAAAATAAAATAA
30470014 AAATAAAGTAATAAATAATAAAAAAATAAAATAA
1 AAATAAA--AATAAATAATAAAAAAATAAAATAA
*
30470048 AAATAAAAATAAGA-AAGAAAAAAATAAAATAA
1 AAATAAAAATAA-ATAATAAAAAAATAAAATAA
30470080 AAATA
1 AAATA
30470085 GGGTTGGCTC
Statistics
Matches: 63, Mismatches: 2, Indels: 10
0.84 0.03 0.13
Matches are distributed among these distances:
30 4 0.06
31 2 0.03
32 31 0.49
33 18 0.29
34 8 0.13
ACGTcount: A:0.77, C:0.00, G:0.04, T:0.19
Consensus pattern (32 bp):
AAATAAAAATAAATAATAAAAAAATAAAATAA
Found at i:30476621 original size:2 final size:2
Alignment explanation
Indices: 30476614--30476646 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
30476604 AGTTTCAGGT
30476614 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
30476647 GTGGTTGTGC
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:30481962 original size:19 final size:18
Alignment explanation
Indices: 30481922--30481958 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
30481912 AAAAGGGGAC
30481922 ATAAAACAATTTAAAATA
1 ATAAAACAATTTAAAATA
* *
30481940 ATAAAACATTTTTAAATA
1 ATAAAACAATTTAAAATA
30481958 A
1 A
30481959 ATAATACACA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.62, C:0.05, G:0.00, T:0.32
Consensus pattern (18 bp):
ATAAAACAATTTAAAATA
Found at i:30483349 original size:27 final size:27
Alignment explanation
Indices: 30483319--30483470 Score: 189
Period size: 27 Copynumber: 5.6 Consensus size: 27
30483309 TTAGTTTACC
30483319 AAATTACCAAAATACCCCTGGTTTGTA
1 AAATTACCAAAATACCCCTGGTTTGTA
* * ** *
30483346 AAATTACTAAAATACCCTTTATTTATA
1 AAATTACCAAAATACCCCTGGTTTGTA
30483373 AAATTACCAAAATACCCCTGGTTTGTA
1 AAATTACCAAAATACCCCTGGTTTGTA
**
30483400 AAATTACCAAAATACCTTTGGTTTGTA
1 AAATTACCAAAATACCCCTGGTTTGTA
* *
30483427 AAATTATCAAAATA-CCCTCGATTTGTA
1 AAATTACCAAAATACCCCT-GGTTTGTA
**
30483454 AAATTACTGAAATACCC
1 AAATTACCAAAATACCC
30483471 TTGTAGGGTA
Statistics
Matches: 104, Mismatches: 19, Indels: 3
0.83 0.15 0.02
Matches are distributed among these distances:
26 2 0.02
27 100 0.96
28 2 0.02
ACGTcount: A:0.40, C:0.19, G:0.08, T:0.33
Consensus pattern (27 bp):
AAATTACCAAAATACCCCTGGTTTGTA
Found at i:30483384 original size:54 final size:55
Alignment explanation
Indices: 30483319--30483472 Score: 224
Period size: 54 Copynumber: 2.8 Consensus size: 55
30483309 TTAGTTTACC
30483319 AAATTACCAAAATACCCCTGGTTTGTAAAATTACTAAAATACCCTTT-ATTTATA
1 AAATTACCAAAATACCCCTGGTTTGTAAAATTACTAAAATACCCTTTGATTTATA
* * *
30483373 AAATTACCAAAATACCCCTGGTTTGTAAAATTACCAAAATA-CCTTTGGTTTGTA
1 AAATTACCAAAATACCCCTGGTTTGTAAAATTACTAAAATACCCTTTGATTTATA
* * *
30483427 AAATTATCAAAATA-CCCTCGATTTGTAAAATTACTGAAATACCCTT
1 AAATTACCAAAATACCCCT-GGTTTGTAAAATTACTAAAATACCCTT
30483473 GTAGGGTAGA
Statistics
Matches: 90, Mismatches: 7, Indels: 5
0.88 0.07 0.05
Matches are distributed among these distances:
53 9 0.10
54 77 0.86
55 4 0.04
ACGTcount: A:0.40, C:0.19, G:0.08, T:0.34
Consensus pattern (55 bp):
AAATTACCAAAATACCCCTGGTTTGTAAAATTACTAAAATACCCTTTGATTTATA
Found at i:30483422 original size:81 final size:81
Alignment explanation
Indices: 30483319--30483470 Score: 225
Period size: 81 Copynumber: 1.9 Consensus size: 81
30483309 TTAGTTTACC
**
30483319 AAATTACCAAAATACCCCTGGTTTGTAAAATTA-CTAAAATACCCTTTATTTATAAAATTACCAA
1 AAATTACCAAAATACCCCTGGTTTGTAAAATTATC-AAAATACCCTCGATTTATAAAATTACCAA
30483383 AATACCCCTGGTTTGTA
65 AATACCCCTGGTTTGTA
** * **
30483400 AAATTACCAAAATACCTTTGGTTTGTAAAATTATCAAAATACCCTCGATTTGTAAAATTACTGAA
1 AAATTACCAAAATACCCCTGGTTTGTAAAATTATCAAAATACCCTCGATTTATAAAATTACCAAA
30483465 ATACCC
66 ATACCC
30483471 TTGTAGGGTA
Statistics
Matches: 63, Mismatches: 7, Indels: 2
0.88 0.10 0.03
Matches are distributed among these distances:
81 62 0.98
82 1 0.02
ACGTcount: A:0.40, C:0.19, G:0.08, T:0.33
Consensus pattern (81 bp):
AAATTACCAAAATACCCCTGGTTTGTAAAATTATCAAAATACCCTCGATTTATAAAATTACCAAA
ATACCCCTGGTTTGTA
Found at i:30483485 original size:27 final size:27
Alignment explanation
Indices: 30483455--30483570 Score: 162
Period size: 27 Copynumber: 4.3 Consensus size: 27
30483445 CGATTTGTAA
* *
30483455 AATTACTGAAATACCCTTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* * *
30483482 AATTA-CAAAATACCCCTATAGGGTGG
1 AATTACCGAAATACCCCTGTAGGGTAG
30483508 AATTACCGAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
**
30483535 AATTACTAAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
30483562 AATTACCGA
1 AATTACCGA
30483571 GACACCTTGT
Statistics
Matches: 76, Mismatches: 12, Indels: 2
0.84 0.13 0.02
Matches are distributed among these distances:
26 21 0.28
27 55 0.72
ACGTcount: A:0.36, C:0.19, G:0.20, T:0.25
Consensus pattern (27 bp):
AATTACCGAAATACCCCTGTAGGGTAG
Found at i:30483486 original size:54 final size:53
Alignment explanation
Indices: 30483319--30483553 Score: 199
Period size: 54 Copynumber: 4.4 Consensus size: 53
30483309 TTAGTTTACC
* * ***
30483319 AAATTACCAAAATACCCCTGGTTTGTAAAATTACTAAAATACCCTT-TATTTATA
1 AAATTA-CAAAATACCCCTGATTTGTAAAATTACCAAAATACCCTTGTA-GGGTA
* * **
30483373 AAATTACCAAAATACCCCTGGTTTGTAAAATTACCAAAATACCTTTGGT-TTGTA
1 AAATTA-CAAAATACCCCTGATTTGTAAAATTACCAAAATACCCTT-GTAGGGTA
**
30483427 AAATTATCAAAATA-CCCTCGATTTGTAAAATTACTGAAATACCCTTGTAGGGTA
1 AAATTA-CAAAATACCCCT-GATTTGTAAAATTACCAAAATACCCTTGTAGGGTA
* ** ** * *
30483481 GAATTACAAAATACCCCT-ATAGGGTGGAATTACCGAAATACCCCTGTAGGGTA
1 AAATTACAAAATACCCCTGAT-TTGTAAAATTACCAAAATACCCTTGTAGGGTA
*
30483534 GAATTACTAAAATACCCCTG
1 AAATTAC-AAAATACCCCTG
30483554 TAGGGTAGAA
Statistics
Matches: 156, Mismatches: 17, Indels: 15
0.83 0.09 0.08
Matches are distributed among these distances:
52 2 0.01
53 46 0.29
54 107 0.69
56 1 0.01
ACGTcount: A:0.38, C:0.19, G:0.12, T:0.30
Consensus pattern (53 bp):
AAATTACAAAATACCCCTGATTTGTAAAATTACCAAAATACCCTTGTAGGGTA
Found at i:30483486 original size:81 final size:81
Alignment explanation
Indices: 30483319--30483498 Score: 222
Period size: 81 Copynumber: 2.2 Consensus size: 81
30483309 TTAGTTTACC
**
30483319 AAATTACCAAAATACCCCTGGTTTGTAAAATTACTAAAATACCCTTTATTTATAAAATTACCAAA
1 AAATTACCAAAATACCCCTGGTTTGTAAAATTACTAAAATACCCTCGATTTATAAAATTACCAAA
**
30483384 ATACCCCTGGTTTGTA
66 ATACCCCTGGTGGGTA
** * **
30483400 AAATTACCAAAATACCTTTGGTTTGTAAAATTA-TCAAAATACCCTCGATTTGTAAAATTACTGA
1 AAATTACCAAAATACCCCTGGTTTGTAAAATTACT-AAAATACCCTCGATTTATAAAATTACCAA
*
30483464 AATA-CCCTTGTAGGGTA
65 AATACCCCTGGT-GGGTA
*
30483481 GAATTA-CAAAATACCCCT
1 AAATTACCAAAATACCCCT
30483499 ATAGGGTGGA
Statistics
Matches: 84, Mismatches: 13, Indels: 5
0.82 0.13 0.05
Matches are distributed among these distances:
80 17 0.20
81 67 0.80
ACGTcount: A:0.39, C:0.19, G:0.09, T:0.32
Consensus pattern (81 bp):
AAATTACCAAAATACCCCTGGTTTGTAAAATTACTAAAATACCCTCGATTTATAAAATTACCAAA
ATACCCCTGGTGGGTA
Found at i:30483519 original size:53 final size:54
Alignment explanation
Indices: 30483455--30483593 Score: 192
Period size: 53 Copynumber: 2.6 Consensus size: 54
30483445 CGATTTGTAA
* *
30483455 AATTACTGAAATACCCTTGTAGGGTAGAATTAC-AAAATACCCCTATAGGGTGG
1 AATTACCGAAATACCCTTGTAGGGTAGAATTACTAAAATACCCCTATAGGGTAG
* *
30483508 AATTACCGAAATACCCCTGTAGGGTAGAATTACTAAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCTTGTAGGGTAGAATTACTAAAATACCCCTATAGGGTAG
* * * *
30483562 AATTACCGAGACA-CCTTGTGGGGTAAAATTAC
1 AATTACCGAAATACCCTTGTAGGGTAGAATTAC
30483594 CATTTTGCCC
Statistics
Matches: 76, Mismatches: 9, Indels: 2
0.87 0.10 0.02
Matches are distributed among these distances:
53 47 0.62
54 29 0.38
ACGTcount: A:0.35, C:0.19, G:0.21, T:0.25
Consensus pattern (54 bp):
AATTACCGAAATACCCTTGTAGGGTAGAATTACTAAAATACCCCTATAGGGTAG
Found at i:30484073 original size:22 final size:22
Alignment explanation
Indices: 30484021--30484085 Score: 78
Period size: 22 Copynumber: 3.0 Consensus size: 22
30484011 TTAAAGCCTT
* *
30484021 CTGATTATGGCTTTGTGTCAAC
1 CTGATTATGGCTCTGTGCCAAC
*
30484043 CT-ACATATGGCTCTGTGCCAAC
1 CTGA-TTATGGCTCTGTGCCAAC
*
30484065 CTGATTATGGCTGTGTGCCAA
1 CTGATTATGGCTCTGTGCCAA
30484086 ACGTATTTGC
Statistics
Matches: 36, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
21 1 0.03
22 34 0.94
23 1 0.03
ACGTcount: A:0.20, C:0.23, G:0.23, T:0.34
Consensus pattern (22 bp):
CTGATTATGGCTCTGTGCCAAC
Found at i:30484274 original size:27 final size:26
Alignment explanation
Indices: 30484244--30484345 Score: 105
Period size: 27 Copynumber: 3.8 Consensus size: 26
30484234 ATTCTGTTAA
* * *
30484244 GTGGCTTTGCCACATTATCTATTTCTG
1 GTGGCTATGCCACAATATCT-GTTCTG
30484271 GTGGCTATGCCACAAATATCTGTTCTG
1 GTGGCTATGCCAC-AATATCTGTTCTG
*
30484298 GTGGCTCTGCCACAATATCTGTATCTG
1 GTGGCTATGCCACAATATCTGT-TCTG
* * * *
30484325 ATGACTCTGTCACAATATCTG
1 GTGGCTATGCCACAATATCTG
30484346 ATAACTGAGC
Statistics
Matches: 66, Mismatches: 7, Indels: 4
0.86 0.09 0.05
Matches are distributed among these distances:
26 9 0.14
27 51 0.77
28 6 0.09
ACGTcount: A:0.21, C:0.24, G:0.20, T:0.36
Consensus pattern (26 bp):
GTGGCTATGCCACAATATCTGTTCTG
Found at i:30484339 original size:54 final size:53
Alignment explanation
Indices: 30484244--30484345 Score: 123
Period size: 54 Copynumber: 1.9 Consensus size: 53
30484234 ATTCTGTTAA
* * * * *
30484244 GTGGCTTTGCCACATTATCTATTTCTGGTGGCTATGCCACAAATATCTGTTCTG
1 GTGGCTCTGCCACAATATCTATATCTGATGACTATGCCAC-AATATCTGTTCTG
* * *
30484298 GTGGCTCTGCCACAATATCTGTATCTGATGACTCTGTCACAATATCTG
1 GTGGCTCTGCCACAATATCTATATCTGATGACTATGCCACAATATCTG
30484346 ATAACTGAGC
Statistics
Matches: 40, Mismatches: 8, Indels: 1
0.82 0.16 0.02
Matches are distributed among these distances:
53 8 0.20
54 32 0.80
ACGTcount: A:0.21, C:0.24, G:0.20, T:0.36
Consensus pattern (53 bp):
GTGGCTCTGCCACAATATCTATATCTGATGACTATGCCACAATATCTGTTCTG
Found at i:30484514 original size:19 final size:19
Alignment explanation
Indices: 30484492--30484549 Score: 58
Period size: 19 Copynumber: 3.4 Consensus size: 19
30484482 TTCTGATTTT
30484492 TGATTCTGTTACCTGATAC
1 TGATTCTGTTACCTGATAC
*
30484511 TGATTCTG--A--T--T-T
1 TGATTCTGTTACCTGATAC
30484523 TGATTCTGTTACCTGATAC
1 TGATTCTGTTACCTGATAC
30484542 TGATTCTG
1 TGATTCTG
30484550 ATTCTAATTC
Statistics
Matches: 30, Mismatches: 2, Indels: 14
0.65 0.04 0.30
Matches are distributed among these distances:
12 8 0.27
13 1 0.03
14 1 0.03
15 1 0.03
16 1 0.03
17 1 0.03
18 1 0.03
19 16 0.53
ACGTcount: A:0.19, C:0.17, G:0.17, T:0.47
Consensus pattern (19 bp):
TGATTCTGTTACCTGATAC
Found at i:30484519 original size:6 final size:6
Alignment explanation
Indices: 30484481--30484600 Score: 68
Period size: 6 Copynumber: 19.3 Consensus size: 6
30484471 ATGCATTCAC
* * *
30484481 ATTCTG ATTTTTG ATTCTG -TTACCTG ATACTG ATTCTG ATTTTG ATTCTG
1 ATTCTG A-TTCTG ATTCTG ATT--CTG ATTCTG ATTCTG ATTCTG ATTCTG
* * * * *
30484531 -TTACCTG ATACTG ATTCTG ATTCTA ATTCTG -TCACCTA ATTCTA ATTCTG
1 ATT--CTG ATTCTG ATTCTG ATTCTG ATTCTG AT--TCTG ATTCTG ATTCTG
30484581 ATTCTG ATTCT- AGTTCTG AT
1 ATTCTG ATTCTG A-TTCTG AT
30484601 AATGTTTCTT
Statistics
Matches: 88, Mismatches: 14, Indels: 24
0.70 0.11 0.19
Matches are distributed among these distances:
5 6 0.07
6 65 0.74
7 14 0.16
8 3 0.03
ACGTcount: A:0.21, C:0.17, G:0.13, T:0.48
Consensus pattern (6 bp):
ATTCTG
Found at i:30484527 original size:31 final size:31
Alignment explanation
Indices: 30484481--30484616 Score: 150
Period size: 31 Copynumber: 4.4 Consensus size: 31
30484471 ATGCATTCAC
*
30484481 ATTCTGATTTTTGATTCTGTTACCTGATACTG
1 ATTCTGA-TTCTGATTCTGTTACCTGATACTG
*
30484513 ATTCTGATTTTGATTCTGTTACCTGATACTG
1 ATTCTGATTCTGATTCTGTTACCTGATACTG
* * * * *
30484544 ATTCTGATTCTAATTCTGTCACCTAATTCTA
1 ATTCTGATTCTGATTCTGTTACCTGATACTG
*
30484575 ATTCTGATTCTGATTCTAGTT--CTGATAATG
1 ATTCTGATTCTGATTCT-GTTACCTGATACTG
* *
30484605 TTTCTTATTCTG
1 ATTCTGATTCTG
30484617 TAATGGGTTA
Statistics
Matches: 89, Mismatches: 14, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
30 15 0.17
31 65 0.73
32 9 0.10
ACGTcount: A:0.21, C:0.17, G:0.13, T:0.49
Consensus pattern (31 bp):
ATTCTGATTCTGATTCTGTTACCTGATACTG
Found at i:30486577 original size:27 final size:27
Alignment explanation
Indices: 30486547--30486727 Score: 258
Period size: 27 Copynumber: 6.7 Consensus size: 27
30486537 TTAGTTTACC
*
30486547 AAATTACCAAAATACCCCTGGTTTGTA
1 AAATTACCAAAATACCCCTAGTTTGTA
* * *
30486574 AAATTACTAAAATACCCTTTA-TTTATA
1 AAATTACCAAAATACCC-CTAGTTTGTA
30486601 AAATTACCAAAATACCCCTAGTTTGTA
1 AAATTACCAAAATACCCCTAGTTTGTA
30486628 AAATTACCAAAATACCCCTAGTTTGTA
1 AAATTACCAAAATACCCCTAGTTTGTA
*
30486655 AAATTATCAAAATACCCCTAGTTTGTA
1 AAATTACCAAAATACCCCTAGTTTGTA
*
30486682 AAATTACCAAAATA-CCCTCAATTTGTA
1 AAATTACCAAAATACCCCT-AGTTTGTA
**
30486709 AAATTACTGAAATACCCCT
1 AAATTACCAAAATACCCCT
30486728 GTAGGGTAGA
Statistics
Matches: 138, Mismatches: 12, Indels: 7
0.88 0.08 0.04
Matches are distributed among these distances:
26 6 0.04
27 127 0.92
28 5 0.04
ACGTcount: A:0.41, C:0.21, G:0.06, T:0.31
Consensus pattern (27 bp):
AAATTACCAAAATACCCCTAGTTTGTA
Found at i:30486652 original size:81 final size:81
Alignment explanation
Indices: 30486547--30486753 Score: 260
Period size: 81 Copynumber: 2.6 Consensus size: 81
30486537 TTAGTTTACC
* *
30486547 AAATTACCAAAATACCCCTGGTTTGTAAAATTA-CTAAAATACCCTTTA-TTTATAAAATTACCA
1 AAATTACCAAAATACCCCTAGTTTGTAAAATTATC-AAAATACCC-CTAGTTTATAAAATTACCA
*
30486610 AAATACCC-CTAGTTTGTA
64 AAATACCCTC-AATTTGTA
*
30486628 AAATTACCAAAATACCCCTAGTTTGTAAAATTATCAAAATACCCCTAGTTTGTAAAATTACCAAA
1 AAATTACCAAAATACCCCTAGTTTGTAAAATTATCAAAATACCCCTAGTTTATAAAATTACCAAA
30486693 ATACCCTCAATTTGTA
66 ATACCCTCAATTTGTA
** ** * *
30486709 AAATTACTGAAATACCCCT-GTAGGGTAGAATTATTAAAATACCCC
1 AAATTACCAAAATACCCCTAGT-TTGTAAAATTATCAAAATACCCC
30486754 GTAGGGTAGA
Statistics
Matches: 112, Mismatches: 10, Indels: 8
0.86 0.08 0.06
Matches are distributed among these distances:
80 4 0.04
81 106 0.95
82 2 0.02
ACGTcount: A:0.41, C:0.20, G:0.08, T:0.31
Consensus pattern (81 bp):
AAATTACCAAAATACCCCTAGTTTGTAAAATTATCAAAATACCCCTAGTTTATAAAATTACCAAA
ATACCCTCAATTTGTA
Found at i:30486740 original size:27 final size:27
Alignment explanation
Indices: 30486710--30486853 Score: 139
Period size: 27 Copynumber: 5.2 Consensus size: 27
30486700 CAATTTGTAA
*
30486710 AATTACTGAAATACCCCTGTAGGGTAG
1 AATTACTAAAATACCCCTGTAGGGTAG
*
30486737 AATTATTAAAATACCCC-GTAGGGTAG
1 AATTACTAAAATACCCCTGTAGGGTAG
* *
30486763 AATTATCGAAATACCCCACCCCTGTAGGGTAG
1 AATTA-CTAAA-A---TACCCCTGTAGGGTAG
*
30486795 AATTACTAAAATACCCCTGTAGGGTGG
1 AATTACTAAAATACCCCTGTAGGGTAG
* * * * *
30486822 AATTACCAAGATA-CCTTGTGGGGTAA
1 AATTACTAAAATACCCCTGTAGGGTAG
30486848 AATTAC
1 AATTAC
30486854 CATTTTGCCC
Statistics
Matches: 97, Mismatches: 14, Indels: 13
0.78 0.11 0.10
Matches are distributed among these distances:
26 29 0.30
27 43 0.44
28 1 0.01
30 1 0.01
31 9 0.09
32 14 0.14
ACGTcount: A:0.35, C:0.19, G:0.20, T:0.26
Consensus pattern (27 bp):
AATTACTAAAATACCCCTGTAGGGTAG
Found at i:30487333 original size:22 final size:22
Alignment explanation
Indices: 30487281--30487345 Score: 69
Period size: 22 Copynumber: 3.0 Consensus size: 22
30487271 TTAAAGCCTT
* *
30487281 CTGATTATGGCTTTGTGTCAAC
1 CTGATTATGGCTCTGTGCCAAC
*
30487303 CT-ACATATGGCTCTGTGCCAAC
1 CTGA-TTATGGCTCTGTGCCAAC
* *
30487325 CTGATTATGGCTGTATGCCAA
1 CTGATTATGGCTCTGTGCCAA
30487346 ACGTATTTGC
Statistics
Matches: 35, Mismatches: 6, Indels: 4
0.78 0.13 0.09
Matches are distributed among these distances:
21 1 0.03
22 33 0.94
23 1 0.03
ACGTcount: A:0.22, C:0.23, G:0.22, T:0.34
Consensus pattern (22 bp):
CTGATTATGGCTCTGTGCCAAC
Found at i:30487533 original size:27 final size:26
Alignment explanation
Indices: 30487486--30487605 Score: 100
Period size: 27 Copynumber: 4.5 Consensus size: 26
30487476 GATGGCTTTG
* *
30487486 TGCCACAA-ATTCTGTT-AAGTGGCTT
1 TGCCACAATA-TCTGTTCTAGTGGCTA
* *
30487511 TGCCACATTATCTATTTCTAGTGGCTA
1 TGCCACAATATCT-GTTCTAGTGGCTA
* *
30487538 TGCCACAAATATCTGTTCTGGTGGCTC
1 TGCCAC-AATATCTGTTCTAGTGGCTA
* * *
30487565 TGCCACAATATCTGTATCTGGTGACTC
1 TGCCACAATATCTGT-TCTAGTGGCTA
*
30487592 TGTCACAATATCTG
1 TGCCACAATATCTG
30487606 ATAATTGAGC
Statistics
Matches: 80, Mismatches: 10, Indels: 8
0.82 0.10 0.08
Matches are distributed among these distances:
25 10 0.12
26 12 0.15
27 52 0.65
28 6 0.08
ACGTcount: A:0.23, C:0.23, G:0.18, T:0.36
Consensus pattern (26 bp):
TGCCACAATATCTGTTCTAGTGGCTA
Found at i:30487599 original size:54 final size:53
Alignment explanation
Indices: 30487504--30487605 Score: 123
Period size: 54 Copynumber: 1.9 Consensus size: 53
30487494 ATTCTGTTAA
* * * *
30487504 GTGGCTTTGCCACATTATCTATTTCTAGTGGCTATGCCACAAATATCTGTTCTG
1 GTGGCTCTGCCACAATATCTATATCTAGTGACTATGCCAC-AATATCTGTTCTG
* * * *
30487558 GTGGCTCTGCCACAATATCTGTATCTGGTGACTCTGTCACAATATCTG
1 GTGGCTCTGCCACAATATCTATATCTAGTGACTATGCCACAATATCTG
30487606 ATAATTGAGC
Statistics
Matches: 40, Mismatches: 8, Indels: 1
0.82 0.16 0.02
Matches are distributed among these distances:
53 8 0.20
54 32 0.80
ACGTcount: A:0.21, C:0.24, G:0.20, T:0.36
Consensus pattern (53 bp):
GTGGCTCTGCCACAATATCTATATCTAGTGACTATGCCACAATATCTGTTCTG
Found at i:30487781 original size:25 final size:25
Alignment explanation
Indices: 30487744--30487815 Score: 81
Period size: 31 Copynumber: 2.6 Consensus size: 25
30487734 CATTCACATT
30487744 CTGATTTTTGATTCTGTTACCTGATA
1 CTGA-TTTTGATTCTGTTACCTGATA
30487770 CTGATTTTGATTTTGATTCTGTTACCTGATA
1 C------TGATTTTGATTCTGTTACCTGATA
30487801 CTGATTTTGATTCTG
1 CTGATTTTGATTCTG
30487816 ATTCTGTCAC
Statistics
Matches: 40, Mismatches: 0, Indels: 13
0.75 0.00 0.25
Matches are distributed among these distances:
25 14 0.35
26 1 0.03
31 22 0.55
32 3 0.08
ACGTcount: A:0.18, C:0.14, G:0.17, T:0.51
Consensus pattern (25 bp):
CTGATTTTGATTCTGTTACCTGATA
Found at i:30487786 original size:31 final size:31
Alignment explanation
Indices: 30487752--30487851 Score: 146
Period size: 31 Copynumber: 3.2 Consensus size: 31
30487742 TTCTGATTTT
*
30487752 TGATTCTGTTACCTGATACTGATTTTGATTT
1 TGATTCTGTTACCTGATACTGATTTTGATTC
30487783 TGATTCTGTTACCTGATACTGATTTTGATTC
1 TGATTCTGTTACCTGATACTGATTTTGATTC
* * * * *
30487814 TGATTCTGTCACCTAATTCTAATTCTGATTC
1 TGATTCTGTTACCTGATACTGATTTTGATTC
30487845 TGATTCT
1 TGATTCT
30487852 AGTTCTGATA
Statistics
Matches: 63, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 63 1.00
ACGTcount: A:0.20, C:0.17, G:0.14, T:0.49
Consensus pattern (31 bp):
TGATTCTGTTACCTGATACTGATTTTGATTC
Found at i:30488967 original size:15 final size:15
Alignment explanation
Indices: 30488947--30488975 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
30488937 TAAAATATTT
30488947 ATTTCCTTTGAAAAC
1 ATTTCCTTTGAAAAC
30488962 ATTTCCTTTGAAAA
1 ATTTCCTTTGAAAA
30488976 TAAGTAACTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.34, C:0.17, G:0.07, T:0.41
Consensus pattern (15 bp):
ATTTCCTTTGAAAAC
Found at i:30489408 original size:28 final size:27
Alignment explanation
Indices: 30489307--30489408 Score: 80
Period size: 28 Copynumber: 3.5 Consensus size: 27
30489297 TCAGTGTTAA
* *
30489307 CTGGGCCTTAGCCCATATCAATATTAAT
1 CTGGGCC-TAGCCCATATCAGTATCAAT
*
30489335 CTGGGCCATAGCCCCT-TACAGTATCAGAGTAT
1 CTGGGCC-TAGCCCATAT-CAGTATC--A--AT
*
30489367 ATTGGGCCTAGCCCATATCAGTATCAAT
1 -CTGGGCCTAGCCCATATCAGTATCAAT
30489395 CTGGGCCGTAGCCC
1 CTGGGCC-TAGCCC
30489409 TATTACAAGT
Statistics
Matches: 59, Mismatches: 7, Indels: 16
0.72 0.09 0.20
Matches are distributed among these distances:
27 7 0.12
28 27 0.46
30 2 0.03
32 16 0.27
33 7 0.12
ACGTcount: A:0.25, C:0.28, G:0.21, T:0.26
Consensus pattern (27 bp):
CTGGGCCTAGCCCATATCAGTATCAAT
Found at i:30489433 original size:60 final size:60
Alignment explanation
Indices: 30489306--30489445 Score: 169
Period size: 60 Copynumber: 2.3 Consensus size: 60
30489296 ATCAGTGTTA
* *
30489306 ACTGGGCCTTAGCCCATATCAATATTAATCTGGGCCATAGCCCCTTACAGTATCAGAGTAT
1 ACTGGGCCTTAGCCCATATCAATATCAATCTGGGCCATAGCCCATTACAG-ATCAGAGTAT
* * *
30489367 ATTGGGCC-TAGCCCATATCAGTATCAATCTGGGCCGTAGCCCTATTACA-AGTC-GAGATAT
1 ACTGGGCCTTAGCCCATATCAATATCAATCTGGGCCATAGCCC-ATTACAGA-TCAGAG-TAT
*
30489427 ACTGGGCCTTTGCCCATAT
1 ACTGGGCCTTAGCCCATAT
30489446 TAACATAGTT
Statistics
Matches: 68, Mismatches: 7, Indels: 8
0.82 0.08 0.10
Matches are distributed among these distances:
59 4 0.06
60 43 0.63
61 21 0.31
ACGTcount: A:0.26, C:0.26, G:0.20, T:0.28
Consensus pattern (60 bp):
ACTGGGCCTTAGCCCATATCAATATCAATCTGGGCCATAGCCCATTACAGATCAGAGTAT
Found at i:30491422 original size:15 final size:15
Alignment explanation
Indices: 30491385--30491413 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
30491375 TTTCCCTATC
30491385 TAATAATAATAATTA
1 TAATAATAATAATTA
30491400 TAATAATAATAATT
1 TAATAATAATAATT
30491414 TTATAAATAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (15 bp):
TAATAATAATAATTA
Found at i:30491900 original size:3 final size:3
Alignment explanation
Indices: 30491892--30491990 Score: 64
Period size: 3 Copynumber: 33.3 Consensus size: 3
30491882 AAATAAATAC
* *
30491892 AAT AAT AAT AAT AAT AAT AAT -GT AGAT AAAT ACAT AA- AA- AAT GAT
1 AAT AAT AAT AAT AAT AAT AAT AAT A-AT -AAT A-AT AAT AAT AAT AAT
* * * * *
30491937 AA- AAT AAT AAT AAT AAT AAT AA- ACT AAGG AAT AAC AAT GAT ACT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AA-T AAT AAT AAT AAT AAT
30491981 AAT AAT AAT A
1 AAT AAT AAT A
30491991 TAAATAAAAT
Statistics
Matches: 74, Mismatches: 14, Indels: 16
0.71 0.13 0.15
Matches are distributed among these distances:
2 8 0.11
3 57 0.77
4 8 0.11
5 1 0.01
ACGTcount: A:0.63, C:0.04, G:0.06, T:0.27
Consensus pattern (3 bp):
AAT
Found at i:30496948 original size:14 final size:14
Alignment explanation
Indices: 30496908--30496957 Score: 61
Period size: 14 Copynumber: 3.8 Consensus size: 14
30496898 CACTGGCTTG
30496908 AGCCAATAAAGTAT
1 AGCCAATAAAGTAT
* *
30496922 AGCGAGT---GTAT
1 AGCCAATAAAGTAT
30496933 AGCCAATAAAGTAT
1 AGCCAATAAAGTAT
30496947 AGCCAATAAAG
1 AGCCAATAAAG
30496958 AGCCTCAGAT
Statistics
Matches: 29, Mismatches: 4, Indels: 6
0.74 0.10 0.15
Matches are distributed among these distances:
11 9 0.31
14 20 0.69
ACGTcount: A:0.46, C:0.14, G:0.20, T:0.20
Consensus pattern (14 bp):
AGCCAATAAAGTAT
Found at i:30496961 original size:25 final size:25
Alignment explanation
Indices: 30496907--30496961 Score: 65
Period size: 25 Copynumber: 2.2 Consensus size: 25
30496897 ACACTGGCTT
* * **
30496907 GAGCCAATAAAGTATAGCGAGTGTA
1 GAGCCAATAAAGTATAGCCAATAAA
*
30496932 TAGCCAATAAAGTATAGCCAATAAA
1 GAGCCAATAAAGTATAGCCAATAAA
30496957 GAGCC
1 GAGCC
30496962 TCAGATTTGT
Statistics
Matches: 24, Mismatches: 6, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.44, C:0.16, G:0.22, T:0.18
Consensus pattern (25 bp):
GAGCCAATAAAGTATAGCCAATAAA
Done.